April 2012 Archives by date

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Starting: Sun Apr 1 15:19:50 CEST 2012
Ending: Mon Apr 30 18:26:36 CEST 2012
Messages: 666

• [BioC] Using the untar() with getGEOSuppFiles()   Sean Davis
• [BioC] Tktable 2.9 makefile problem   Eric P
• [BioC] DESeq countDataSets and arrayQualityMetrics (was: Re: DESeq estimateDispersion options for lower depth miRNA-seq)   Wolfgang Huber
• [BioC] Definition of probes in lumiHumanAll annotation database   Javier Pérez Florido
• [BioC] Definition of probes in lumiHumanAll annotation database   Mark Dunning
• [BioC] DNAcopy for CNV in SNP Affy 6.0   Ekta Jain
• [BioC] Definition of probes in lumiHumanAll annotation database   Javier Pérez Florido
• [BioC] listMart error with local biomart   MLSC
• [BioC] Tktable 2.9 makefile problem   Lapointe, David
• [BioC] listMart error with local biomart   Syed Haider
• [BioC] DEXSeq with no biological replicate?   Sang Chul Choi
• [BioC] problems with oneChannelGUI   Manuela Di Russo
• [BioC] Definition of probes in lumiHumanAll annotation database   Pan Du
• [BioC] Definition of probes in lumiHumanAll annotation database   Davis, Wade
• [BioC] DEXSeq with no biological replicate?   Simon Anders
• [BioC] Tktable 2.9 makefile problem   Martin Morgan
• [BioC] Error in justPlier(mydata) : NA/NaN/Inf in foreign function call (arg 23)   Mamta Giri
• [BioC] edgeR for large sample size   Richard Hu [guest]
• [BioC] problem getting setNodeColorRule from RCytoscape to work   Tony
• [BioC] Bioconductor 2.10 is released   Dan Tenenbaum
• [BioC] DNAcopy for CNV in SNP Affy 6.0   Ekta Jain
• [BioC] edgeR for large sample size   Gordon K Smyth
• [BioC] Mas5 log transformed data   Eleonora Lusito [guest]
• [BioC] problem getting setNodeColorRule from RCytoscape to work   Paul Shannon
• [BioC] GSEAlm Help   Masood-Ul-Hassan
• [BioC] listMart error with local biomart   MLSC
• [BioC] ChIPpeakAnno: Question about strand conversion in BED2RangedData()   Zhu, Lihua (Julie)
• [BioC] Mas5 log transformed data   James W. MacDonald
• [BioC] problem getting setNodeColorRule from RCytoscape to work   Tony
• [BioC] counts vs exprs   Ed Siefker
• [BioC] Error: Cannot allocate vector of size 279.1Mb   Desiree Wilson
• [BioC] Error: Cannot allocate vector of size 279.1Mb   Steve Lianoglou
• [BioC] Error: Cannot allocate vector of size 279.1Mb   Desiree Wilson
• [BioC] oligonucleotideTransitions from Biostrings package   Hervé Pagès
• [BioC] Manhattan plot for CNVs association results   Yadav Sapkota
• [BioC] problem getting setNodeColorRule from RCytoscape to work   Paul Shannon
• [BioC] Manhattan plot for CNVs association results   Tengfei Yin
• [BioC] problem getting setNodeColorRule from RCytoscape to work   Tony
• [BioC] Problems installing Genominator and GenomeGraphs   Jose Lopez [guest]
• [BioC] Error: Cannot allocate vector of size 279.1Mb   Martin Morgan
• [BioC] Manhattan plot for CNVs association results   Yadav Sapkota
• [BioC] Manhattan plot for CNVs association results   Tengfei Yin
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Sang Chul Choi
• [BioC] Problems installing Genominator and GenomeGraphs   Dan Tenenbaum
• [BioC] Manhattan plot for CNVs association results   Yadav Sapkota
• [BioC] Problems installing Genominator and GenomeGraphs   José Fabricio López Hernández
• [BioC] Error: Cannot allocate vector of size 279.1Mb   Martin Morgan
• [BioC] using cosmo to find multiple DNA motifs   Paul Shannon
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Steve Lianoglou
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Michael Lawrence
• [BioC] DESeq problems with plotDispEst using pooled-CR   chris_utah
• [BioC] flowClust error   Anja Mirenska
• [BioC] counts vs exprs   Wolfgang Huber
• [BioC] DESeq problems with plotDispEst using pooled-CR   Wolfgang Huber
• [BioC] hiSeqTools   Philipp Brand
• [BioC] htSeqTools Question   Philipp Brand
• [BioC] edgeR and tagwise dispersion: overcorrection for multiple tests?   alessandro.guffanti at genomnia.com
• [BioC] plausibility of cyclic loess normalization on multiple experiment   Cytochalasin
• [BioC] SeattleIntro2011   YIfang Tan [guest]
• [BioC] cummeRbund error   Bruce Moran(External)
• [BioC] SeattleIntro2011   Dan Tenenbaum
• [BioC] [Limma] lmFit handle missing value in phenotype   yao chen
• [BioC] Recommended gene model for DESeq   Assaf Gordon
• [BioC] [Limma] lmFit handle missing value in phenotype   James W. MacDonald
• [BioC] Bacterial genome annotation package using AnnotationDbi?   Sang Chul Choi
• [BioC] Rgraphviz and node label placement   Paul Murrell
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Marc Carlson
• [BioC] VariantAnnotation's predictCoding (via getTranscriptSeqs) calls makeUCSCTxListFromGRangesList with wrong function signature?   Sang Chul Choi
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Sang Chul Choi
• [BioC] [Limma] lmFit handle missing value in phenotype   Moshe Olshansky
• [BioC] plausibility of cyclic loess normalization on multiple experiment   Moshe Olshansky
• [BioC] [Limma] lmFit handle missing value in phenotype   yao chen
• [BioC] [Limma] lmFit handle missing value in phenotype   Moshe Olshansky
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Michael Lawrence
• [BioC] all miRNAs related to a specific keyword, such as glioblastoma   Cytochalasin
• [BioC] Recommended gene model for DESeq   Simon Anders
• [BioC] Recommended gene model for DESeq   Nicolas Delhomme
• [BioC] all miRNAs related to a specific keyword, such as glioblastoma   James F. Reid
• [BioC] ERROR: Length of \'group\' must equal number of columns in \'data\'   aliaselin [guest]
• [BioC] ERROR: Length of \'group\' must equal number of columns in \'data\'   Mark Robinson
• [BioC] [Limma] lmFit handle missing value in phenotype   yao chen
• [BioC] [Limma] lmFit handle missing value in phenotype   James W. MacDonald
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Tim Triche, Jr.
• [BioC] [Limma] lmFit handle missing value in phenotype   yao chen
• [BioC] [Limma] lmFit handle missing value in phenotype   James W. MacDonald
• [BioC] [Limma] lmFit handle missing value in phenotype   yao chen
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Sang Chul Choi
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Cook, Malcolm
• [BioC] clustering million points : transcript start and end sites   Abhishek Pratap
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Nicolas Delhomme
• [BioC] Import Bam index (Rsamtools)   Francesco Mancuso
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Cook, Malcolm
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Nicolas Delhomme
• [BioC] Import Bam index (Rsamtools)   Martin Morgan
• [BioC] Warning: unable to access index for repository http://www.stats.ox.ac.uk/pub/RWin/bin/macosx/leopard/contrib/2.15?   Sang Chul Choi
• [BioC] Warning: unable to access index for repository http://www.stats.ox.ac.uk/pub/RWin/bin/macosx/leopard/contrib/2.15?   Dan Tenenbaum
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Tim Triche, Jr.
• [BioC] Recommended gene model for DESeq   Assaf Gordon
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Tim Triche, Jr.
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Michael Lawrence
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Tim Triche, Jr.
• [BioC] VariantAnnotation's predictCoding (via getTranscriptSeqs) calls makeUCSCTxListFromGRangesList with wrong function signature?   Valerie Obenchain
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Tim Triche, Jr.
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Tim Triche, Jr.
• [BioC] Create transcriptDb using gff3 files? - library GenomicFeatures and rtracklayer   Tim Triche, Jr.
• [BioC] Recommended gene model for DESeq   Valerie Obenchain
• [BioC] Finding coding SNPs with predictCoding   Valerie Obenchain
• [BioC] GenomicRanges::summarizeOverlaps without strands?   Sang Chul Choi
• [BioC] GenomicRanges::summarizeOverlaps without strands?   Sang Chul Choi
• [BioC] edgeR and tagwise dispersion: overcorrection for multiple tests?   Gordon K Smyth
• [BioC] Finding coding SNPs with predictCoding   Thomas Girke
• [BioC] GenomicRanges::summarizeOverlaps without strands?   Valerie Obenchain
• [BioC] Difficulty with limma contrast matrix creation   Brian Gorsuch [guest]
• [BioC] how GSEA phenotype label works?   wenhuo hu
• [BioC] how GSEA phenotype label works?   Paul Geeleher
• [BioC] Difficulty with limma contrast matrix creation   Paul Geeleher
• [BioC] Difficulty with limma contrast matrix creation   James W. MacDonald
• [BioC] Difficulty with limma contrast matrix creation   James W. MacDonald
• [BioC] load a TranscriptDb object in another R session?   Sang Chul Choi
• [BioC] load a TranscriptDb object in another R session?   Cook, Malcolm
• [BioC] Help - Rgraphviz install error for R 2.15 on Ubuntu 11.10   Holly
• [BioC] Recommended gene model for DESeq   Assaf Gordon
• [BioC] load a TranscriptDb object in another R session?   Marc Carlson
• [BioC] Recommended gene model for DESeq   Simon Anders
• [BioC] Help - Rgraphviz install error for R 2.15 on Ubuntu 11.10   Dan Tenenbaum
• [BioC] edgeR and tagwise dispersion: overcorrection for multiple tests?   Guffanti Alessandro
• [BioC] Recommended gene model for DESeq   Nicolas Delhomme
• [BioC] arrayQualityMetrics error with MAList   Wolfgang Huber
• [BioC] How to convert from IRanges(List) to Rle(List)   Nicolas Delhomme
• [BioC] Recommended gene model for DESeq   Simon Anders
• [BioC] How to convert from IRanges(List) to Rle(List)   Martin Morgan
• [BioC] Help - Rgraphviz install error for R 2.15 on Ubuntu 11.10   Holly
• [BioC] How to convert from IRanges(List) to Rle(List)   Michael Lawrence
• [BioC] How to convert from IRanges(List) to Rle(List)   Valerie Obenchain
• [BioC] How to convert from IRanges(List) to Rle(List)   Michael Lawrence
• [BioC] How to convert from IRanges(List) to Rle(List)   Nicolas Delhomme
• [BioC] How to convert from IRanges(List) to Rle(List)   Nicolas Delhomme
• [BioC] Recommended gene model for DESeq   Nicolas Delhomme
• [BioC] Errors for estimateGLMTrendedDisp and estimateGLMCommonDisp functions in the edgeR package   Yao,Hui
• [BioC] Open Position - Academic Coordinator for Bioinformatics   Thomas Girke
• [BioC] multifactorial analysis   Andreia Fonseca
• [BioC] multifactorial analysis   Simon Anders
• [BioC] multifactorial analysis   Andreia Fonseca
• [BioC] how to deal with fasta "line is too long"   wang peter
• [BioC] how to deal with fasta "line is too long"   Sean Davis
• [BioC] normalizing only 2 affy samples   Juliet Hannah
• [BioC] normalizing only 2 affy samples   James W. MacDonald
• [BioC] normalizing only 2 affy samples   Matthew McCall
• [BioC] How to convert from IRanges(List) to Rle(List)   Valerie Obenchain
• [BioC] normalizing only 2 affy samples   Juliet Hannah
• [BioC] DEXSeq error during fold change calculation   Beth [guest]
• [BioC] How to convert from IRanges(List) to Rle(List)   Michael Lawrence
• [BioC] How to convert from IRanges(List) to Rle(List)   Cook, Malcolm
• [BioC] How to convert from IRanges(List) to Rle(List)   Michael Lawrence
• [BioC] how to deal with fasta "line is too long"   Marcus Davy
• [BioC] question about DESeq or tissue-specific expression   Daofeng Li
• [BioC] Course: R / Bioconductor for High-Throughput Sequence Analysis   Martin Morgan
• [BioC] Install error affxparser for R 2.15   David Ruau
• [BioC] Install error affxparser for R 2.15   Dan Tenenbaum
• [BioC] Course: R / Bioconductor for High-Throughput Sequence Analysis   Martin Morgan
• [BioC] Install error affxparser for R 2.15   David Ruau
• [BioC] Install error affxparser for R 2.15   Dan Tenenbaum
• [BioC] Install error affxparser for R 2.15   David Ruau
• [BioC] Install error affxparser for R 2.15   Dan Tenenbaum
• [BioC] Install error affxparser for R 2.15   David Ruau
• [BioC] Checking output of DESeq package analysis   Anupreet kour [guest]
• [BioC] Install error affxparser for R 2.15   Kasper Daniel Hansen
• [BioC] How to compute the stabilized variance in DESeq?   Peng Yu
• [BioC] Errors for estimateGLMTrendedDisp and estimateGLMCommonDisp functions in the edgeR package   Gordon K Smyth
• [BioC] how to deal with fasta "line is too long"   Marcus Davy
• [BioC] unsubscribe from mailing list   Abdul Sesay
• [BioC] how to deal with fasta "line is too long"   Martin Morgan
• [BioC] Export a BigWig with rtracklayer   Dario Strbenac
• [BioC] Checking output of DESeq package analysis   Simon Anders
• [BioC] Using the untar() with getGEOSuppFiles()   Ovokeraye Achinike-Oduaran
• [BioC] How to compute the stabilized variance in DESeq?   Simon Anders
• [BioC] DEXSeq error during fold change calculation   Alejandro Reyes
• [BioC] flowClust problem   Anja Mirenska
• [BioC] How to compute the stabilized variance in DESeq?   Peng Yu
• [BioC] Anova on 16 CEL files and no annotated data frame(s)   Paul, Cristina
• [BioC] ANOVA on 16 CEL files and no anootated data frame(s)   Paul, Cristina
• [BioC] Export a BigWig with rtracklayer   Michael Lawrence
• [BioC] question about edgeR and Poisson model: common dispersion is too low   Glazko, Galina V
• [BioC] unsubscribe from mailing list   James W. MacDonald
• [BioC] Anova on 16 CEL files and no annotated data frame(s)   James W. MacDonald
• [BioC] Doubt/Help - Microarray in R 2.12.2   Vinicius Ribeiro
• [BioC] Using limma to identify differentially expressed genes   David Westergaard
• [BioC] changing directory in RStudio and Bioconductor AMI and Amazon EC2   Andrew Yee
• [BioC] changing directory in RStudio and Bioconductor AMI and Amazon EC2   Dan Tenenbaum
• [BioC] how to deal with fasta "line is too long"   wang peter
• [BioC] Using limma to identify differentially expressed genes   James W. MacDonald
• [BioC] question about BSgenome and C.pombe genome, absent in USCS   Zybaylov, Boris L
• [BioC] DEXSeq error during fold change calculation   Wolfgang Huber
• [BioC] question about DESeq or tissue-specific expression   Wolfgang Huber
• [BioC] how to deal with fasta "line is too long"   Marcus Davy
• [BioC] multifactorial analysis   Gordon K Smyth
• [BioC] Question about using lumi package   Hu, Xin
• [BioC] Can beadarray be use to analyze iScan raw data without perBeadFile.txt files?   Anna [guest]
• [BioC] Export a BigWig with rtracklayer   Dario Strbenac
• [BioC] question about edgeR and Poisson model: common dispersion is too low   Gordon K Smyth
• [BioC] Export a BigWig with rtracklayer   Michael Lawrence
• [BioC] Read .idat Illumina files in R   Ekta Jain
• [BioC] Using limma to identify differentially expressed genes   Ovokeraye Achinike-Oduaran
• [BioC] PDF heatmap brightness problem   Alyaa Mahmoud
• [BioC] Using limma to identify differentially expressed genes   James W. MacDonald
• [BioC] PDF heatmap brightness problem   wenhuo hu
• [BioC] problem with 'biomaRt' package installation: Error in loadNamespace(i, c(lib.loc, .libPaths()))   Glazko, Galina V
• [BioC] Read .idat Illumina files in R   Moiz Bootwalla
• [BioC] Using limma to identify differentially expressed genes   Ovokeraye Achinike-Oduaran
• [BioC] problem with 'biomaRt' package installation: Error in loadNamespace(i, c(lib.loc, .libPaths()))   Dan Tenenbaum
• [BioC] distanceToNearest for GRanges?   Valerie Obenchain
• [BioC] Bioconductor Digest, Vol 110, Issue 11   Pan Du
• [BioC] Question about using lumi package   Pan Du
• [BioC] edgeR usage   narges [guest]
• [BioC] edgeR usage   James W. MacDonald
• [BioC] distanceToNearest for GRanges?   Cook, Malcolm
• [BioC] Read .idat Illumina files in R   Tim Triche, Jr.
• [BioC] flowClust problem   Valerie Obenchain
• [BioC] question about getGOList in GeneAnswers   Zhi Zhang
• [BioC] edgeR reading data   Wang, Li
• [BioC] distanceToNearest for GRanges?   Valerie Obenchain
• [BioC] distanceToNearest for GRanges?   Tim Triche, Jr.
• [BioC] distanceToNearest for GRanges?   Tim Triche, Jr.
• [BioC] Genominator error when calling syste.time   Boel Brynedal
• [BioC] Genominator error when calling syste.time   Kasper Daniel Hansen
• [BioC] edgeR reading data   Guffanti Alessandro
• [BioC] Genominator error when calling syste.time   Dan Tenenbaum
• [BioC] Genominator error when calling syste.time   Kasper Daniel Hansen
• [BioC] Dunnett\'s test for greater than 1000 groups   Jason [guest]
• [BioC] Problems easyRNASeq   Yates, Steven A
• [BioC] Finding coding SNPs with predictCoding   Alex Gutteridge
• [BioC] Can beadarray be use to analyze iScan raw data without perBeadFile.txt files?   Mike Smith
• [BioC] Read .idat Illumina files in R   Mike Smith
• [BioC] how to import some specific columns into R   narges [guest]
• [BioC] how to import some specific columns into R   Martin Morgan
• [BioC] problem with 'biomaRt' package installation: Error in loadNamespace(i, c(lib.loc, .libPaths()))   Glazko, Galina V
• [BioC] mapping information \"QualityScore\" appears missing in lumiHumanIDMapping versions 1.8.0 and 1.10.0   Holger [guest]
• [BioC] NUSE lmFit fitPLM   BIll Fends
• [BioC] Genominator error when calling syste.time   Boel Brynedal
• [BioC] DeSeq - How to get the Biological Coefficient of Variation   Miguel Gallach
• [BioC] error in dispersion estimate   mariangela bonizzoni
• [BioC] making a DGEList object   narges [guest]
• [BioC] how to make a specific DGEList object   narges [guest]
• [BioC] Genominator error when calling syste.time   Kasper Daniel Hansen
• [BioC] Problem with BGandNorm() from the Agi4x44PreProcess package   Marco Fabbri
• [BioC] Genominator error when calling syste.time   Boel Brynedal
• [BioC] Question about Infinium Methylation normalization using lumi package   Pan Du
• [BioC] error in dispersion estimate   mariangela bonizzoni
• [BioC] [Hinxton #251937] RE: GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred from the exon and UTR info doesn't match the "cds_length" attribute from BioMart   Cook, Malcolm
• [BioC] Problems easyRNASeq   Nicolas Delhomme
• [BioC] Trouble using Agi4x44tPreProcess to anaylise old files   matthew vitalone
• [BioC] Can beadarray be use to analyze iScan raw data without perBeadFile.txt files?   Mike Smith
• [BioC] gene set enrichment analysis of RNA-Seq data   Julie Leonard
• [BioC] clustering RNA-Seq data and performing gene set enrichment analysis   Julie Leonard
• [BioC] edgeR reading data   Gordon K Smyth
• [BioC] flowWorkspace transformation on FCS 3 data   Nikolas
• [BioC] gene set enrichment analysis of RNA-Seq data   Gordon K Smyth
• [BioC] Creating a Venn Diagram with 4 sets   lcarvalh at btk.fi
• [BioC] error in dispersion estimate   Simon Anders
• [BioC] Creating a Venn Diagram with 4 sets   James W. MacDonald
• [BioC] Illumina beadarray analysis with lumi   Ahmet ZEHIR
• [BioC] Biostring: print sequence alignment to file   Martin Preusse
• [BioC] Affymetrix data   hsharm03 at students.poly.edu
• [BioC] read.ilmn Error in 'colnames<-'...   Katrina Bogan
• [BioC] Affymetrix data   Edwin Groot
• [BioC] Affymetrix data   wenhuo hu
• [BioC] edgeR reading data   Wang, Li
• [BioC] flowWorkspace transformation on FCS 3 data (Nikolas)   Greg Finak
• [BioC] Creating a Venn Diagram with 4 sets   Enrique Meza C
• [BioC] edgeR reading data   Steve Lianoglou
• [BioC] Biostring: print sequence alignment to file   Chu, Charles
• [BioC] Creating a Venn Diagram with 4 sets   Nitish Kumar Mishra
• [BioC] axis control in plotarray   Daniel E L Promislow
• [BioC] gene set enrichment analysis of RNA-Seq data   Julie Leonard
• [BioC] Creating a Venn Diagram with 4 sets   "Steffen Möller"
• [BioC] errors in using edgeR   Wang, Li
• [BioC] Non ambiguous DNA runs   Marcus Davy
• [BioC] errors in using edgeR   Gordon K Smyth
• [BioC] edgeR reading data   Gordon K Smyth
• [BioC] NUSE lmFit fitPLM   Gordon K Smyth
• [BioC] gene set enrichment analysis of RNA-Seq data   Gordon K Smyth
• [BioC] Non ambiguous DNA runs   Harris A. Jaffee
• [BioC] ]   farker [guest]
• [BioC] Job offer: Postdoc Comp. Biol. of RNA-protein interactions, data analysis of MS and HTS at EMBL Heidelberg   Wolfgang Huber
• [BioC] What populates makeTranscriptDbFromBiomart?   Ravi Karra
• [BioC] BamStreamer   Thomas Girke
• [BioC] BamStreamer   Martin Morgan
• [BioC] How to generate an annotation library without CDF file?   Shu-wen Huang
• [BioC] Affy data analysis   hsharm03 at students.poly.edu
• [BioC] Removing duplicate probes from expressionset   Angela McDonald
• [BioC] How to generate an annotation library without CDF file?   Benilton Carvalho
• [BioC] Removing duplicate probes from expressionset   Martin Morgan
• [BioC] How to generate an annotation library without CDF file?   Shu-wen Huang
• [BioC] How to generate an annotation library without CDF file?   Benilton Carvalho
• [BioC] How to generate an annotation library without CDF file?   Shu-wen Huang
• [BioC] How to generate an annotation library without CDF file?   Benilton Carvalho
• [BioC] How to generate an annotation library without CDF file?   Shu-wen Huang
• [BioC] How to generate an annotation library without CDF file?   Benilton Carvalho
• [BioC] deprecated head file for RBGL and compilation failure   eastasiax [guest]
• [BioC] deprecated head file for RBGL and compilation failure   Vincent Carey
• [BioC] Non ambiguous DNA runs   Marcus Davy
• [BioC] read.ilmn Error in 'colnames<-'...   Wei Shi
• [BioC] Biostring: print sequence alignment to file   Martin Preusse
• [BioC] pm summarization method   Assa Yeroslaviz
• [BioC] Biostring: print sequence alignment to file   Chu, Charles
• [BioC] DeSeq - How to get the Biological Coefficient of Variation   Simon Anders
• [BioC] What populates makeTranscriptDbFromBiomart?   Steve Lianoglou
• [BioC] Affy data analysis   James W. MacDonald
• [BioC] How to generate an annotation library without CDF file?   Benilton Carvalho
• [BioC] pm summarization method   James W. MacDonald
• [BioC] Affy data analysis   James W. MacDonald
• [BioC] Affy data analysis   hsharm03 at students.poly.edu
• [BioC] SeqAhead Workshop on High Performance Computing for NGS data analysis   Ana Conesa
• [BioC] Problem with intraIDMapper   Faryabi, Robert (NIH/NCI) [F]
• [BioC] What populates makeTranscriptDbFromBiomart?   Marc Carlson
• [BioC] What populates makeTranscriptDbFromBiomart?   Marc Carlson
• [BioC] pm summarization method   Assa Yeroslaviz
• [BioC] geneLenDataBase installation issues   Matthew Young
• [BioC] Extracting elements from a table with VennCounts   lcarvalh at btk.fi
• [BioC] Good microarray analysis books   Aliaksei Holik
• [BioC] Good microarray analysis books   Wolfgang Huber
• [BioC] geneLenDataBase installation issues   Martin Morgan
• [BioC] rsbml: problem writing a model to file   Michael Lawrence
• [BioC] Extracting elements from a table with VennCounts   James W. MacDonald
• [BioC] VariantAnnotation locateVariants - meaning of precedesID and followsID   Paul Theodor Pyl
• [BioC] Parallelizing Biostrings::pairwiseAlignment locally with multicore::mclapply problems?   Steve Lianoglou
• [BioC] Parallelizing Biostrings::pairwiseAlignment locally with multicore::mclapply problems?   Steve Lianoglou
• [BioC] Parallelizing Biostrings::pairwiseAlignment locally with multicore::mclapply problems?   Steve Lianoglou
• [BioC] calculating overlap DE genes of two DGEList objects   narges [guest]
• [BioC] Biostring: print sequence alignment to file   Hervé Pagès
• [BioC] DEXSeq: problem with dexseq_prepare_annotation.py   Stephen Turner
• [BioC] Parallelizing Biostrings::pairwiseAlignment locally with multicore::mclapply problems?   Martin Morgan
• [BioC] pm summarization method   James W. MacDonald
• [BioC] Biostring: print sequence alignment to file   Thomas Girke
• [BioC] Affy data analysis   hsharm03 at students.poly.edu
• [BioC] PhenoData   hsharm03 at students.poly.edu
• [BioC] PhenoData   Sean Davis
• [BioC] Affy data analysis   James W. MacDonald
• [BioC] Affy data analysis   hsharm03 at students.poly.edu
• [BioC] Biostring: print sequence alignment to file   Hervé Pagès
• [BioC] Biostring: print sequence alignment to file   Thomas Girke
• [BioC] VariantAnnotation locateVariants - meaning of precedesID and followsID   Valerie Obenchain
• [BioC] exprs() in Bioc 2.10   Michael Morley
• [BioC] GOseq for enrichment of clustering results   Julie.Leonard at SYNGENTA.COM
• [BioC] Calculating alignment scores from aligned sequences   Steve Lianoglou
• [BioC] differential gene set analysis   Ed Siefker
• [BioC] Calculating alignment scores from aligned sequences   Michael Lawrence
• [BioC] Affy data analysis   hsharm03 at students.poly.edu
• [BioC] Good microarray analysis books   Dr. Saroj K Mohapatra
• [BioC] extract intensity values from AffyBatch   Assa Yeroslaviz
• [BioC] pm summarization method   Assa Yeroslaviz
• [BioC] DEXSeq: problem with dexseq_prepare_annotation.py   Alejandro Reyes
• [BioC] ggbio: error when updating to current release version   Juan L. Mateo
• [BioC] Good microarray analysis books   Aliaksei Holik
• [BioC] DESeq without replicates, Problem trying to obtain significant hits   Asma
• [BioC] differential gene set analysis   Paul Geeleher
• [BioC] differential gene set analysis   Simon Anders
• [BioC] Biostring: print sequence alignment to file   Martin Preusse
• [BioC] Biostring: print sequence alignment to file   Martin Preusse
• [BioC] differential gene set analysis   Gordon K Smyth
• [BioC] GOseq for enrichment of clustering results   Alicia Oshlack
• [BioC] ggbio: error when updating to current release version   Vincent Carey
• [BioC] design matrix with technical and biologial replicates   Manuela Di Russo
• [BioC] exprs() in Bioc 2.10   Benilton Carvalho
• [BioC] ggbio: error when updating to current release version   Juan L. Mateo
• [BioC] exprs() in Bioc 2.10   Michael Morley
• [BioC] exprs() in Bioc 2.10   Benilton Carvalho
• [BioC] Few errors with edgeR   Javerjung Sandhu
• [BioC] pm summarization method   James W. MacDonald
• [BioC] exprs() in Bioc 2.10   Michael Morley
• [BioC] ggbio: error when updating to current release version   Michael Lawrence
• [BioC] Affy data analysis   James W. MacDonald
• [BioC] Few errors with edgeR   Mark Robinson
• [BioC] design matrix with technical and biologial replicates   James W. MacDonald
• [BioC] R: design matrix with technical and biologial replicates   Manuela Di Russo
• [BioC] R: design matrix with technical and biologial replicates   James W. MacDonald
• [BioC] Gene-gene interaction analysis   Yadav Sapkota
• [BioC] ggbio: error when updating to current release version   Martin Morgan
• [BioC] ggbio: error when updating to current release version   Juan L. Mateo
• [BioC] ggbio: error when updating to current release version   Martin Morgan
• [BioC] ggbio: error when updating to current release version   Juan L. Mateo
• [BioC] rtracklayer proposal for ISSUE: import.gff3 asRangedData=FALSE fails when strand is '.'   Cook, Malcolm
• [BioC] Gene-gene interaction analysis   Wolfgang Huber
• [BioC] ggbio: error when updating to current release version   Tim Triche, Jr.
• [BioC] Affy PhenoData   hsharm03 at students.poly.edu
• [BioC] DEXSeq: problem with dexseq_prepare_annotation.py   Wolfgang Huber
• [BioC] Gene-gene interaction analysis   Sean Davis
• [BioC] rtracklayer proposal for ISSUE: import.gff3 asRangedData=FALSE fails when strand is '.'   Hervé Pagès
• [BioC] ggbio: error when updating to current release version   Tengfei Yin
• [BioC] rtracklayer proposal for ISSUE: import.gff3 asRangedData=FALSE fails when strand is '.'   Cook, Malcolm
• [BioC] Affy PhenoData   James W. MacDonald
• [BioC] Biological Pathway Database   Gita Singh
• [BioC] retrieve gene symbol/description   array chip
• [BioC] retrieve gene symbol/description   Sean Davis
• [BioC] retrieve gene symbol/description   array chip
• [BioC] retrieve gene symbol/description   Sean Davis
• [BioC] MotIV is not installed properly   Swaroopa Muppiri
• [BioC] retrieve gene symbol/description   array chip
• [BioC] MotIV is not installed properly   Dan Tenenbaum
• [BioC] Affy PhenoData   hsharm03 at students.poly.edu
• [BioC] rtracklayer proposal for ISSUE: import.gff3 asRangedData=FALSE fails when strand is '.'   Michael Lawrence
• [BioC] Correlation plot in R   lcarvalh at btk.fi
• [BioC] Correlation plot in R   Marcus Davy
• [BioC] Complementing alleles in a VCF   Alex Gutteridge
• [BioC] Complementing alleles in a VCF   Martin Morgan
• [BioC] Odd warning in simpleaffy, using quality control   ejulia
• [BioC] Complementing alleles in a VCF   Alex Gutteridge
• [BioC] extract data from RangedData table (IRange TEQC packages)   nathalie
• [BioC] installation error of a bioconductor package in my workspace   carol white
• [BioC] extract data from RangedData table (IRange TEQC packages)   Ivan Gregoretti
• [BioC] extract data from RangedData table (IRange TEQC packages)   nathalie
• [BioC] extract data from RangedData table (IRange TEQC packages)   Ivan Gregoretti
• [BioC] Regarding MotIv and PICS package install   Swaroopa Muppiri
• [BioC] retrieve gene symbol/description   Marc Carlson
• [BioC] installation error of a bioconductor package in my workspace   carol white
• [BioC] installation error of a bioconductor package in my workspace   Steve Lianoglou
• [BioC] installation error of a bioconductor package in my workspace   carol white
• [BioC] installation error of a bioconductor package in my workspace   Steve Lianoglou
• [BioC] installation error of a bioconductor package in my workspace   carol white
• [BioC] installation error of a bioconductor package in my workspace   Dan Tenenbaum
• [BioC] installation error of a bioconductor package in my workspace   carol white
• [BioC] installation error of a bioconductor package in my workspace   Dan Tenenbaum
• [BioC] installation error of a bioconductor package in my workspace   Sean Davis
• [BioC] installation error of a bioconductor package in my workspace   carol white
• [BioC] installation error of a bioconductor package in my workspace   Dan Tenenbaum
• [BioC] installation error of a bioconductor package in my workspace   James W. MacDonald
• [BioC] Few errors with edgeR   Javerjung Sandhu
• [BioC] How to output the graphs generated during edgeR analysis to pdf file   Javerjung Sandhu
• [BioC] extract data from RangedData table (IRange TEQC packages)   Michael Lawrence
• [BioC] How to output the graphs generated during edgeR analysis to pdf file   Sean Davis
• [BioC] How to output the graphs generated during edgeR analysis to pdf file   Sermsawat Tunlaya-Anukit
• [BioC] flowWorkspace transformation on FCS 3 data (Nikolas)   Nikolas
• [BioC] problems with strand in predictCoding   Jeremiah Degenhardt
• [BioC] problems with strand in predictCoding   Sean Davis
• [BioC] TMM factors   Sooby
• [BioC] pm summarization method   Assa Yeroslaviz
• [BioC] problems with strand in predictCoding   Alex Gutteridge
• [BioC] error with affycomp package   andrea.grilli at ior.it
• [BioC] Postdoctoral position available at Stellenbosch University   Warnich, Louise <lw at sun.ac.za>
• [BioC] problems with strand in predictCoding   Michael Lawrence
• [BioC] Motif search   nooshin
• [BioC] Using package Ringo to analyze Agilent Chip on chip array   Gabriel Wajnberg
• [BioC] R: R: design matrix with technical and biologial replicates   Manuela Di Russo
• [BioC] Motif search   Paul Shannon
• [BioC] problems with strand in predictCoding   Tim Triche, Jr.
• [BioC] problems with strand in predictCoding   Tim Triche, Jr.
• [BioC] Motif search   nooshin
• [BioC] distanceToNearest for GRanges?   Michael Muratet
• [BioC] Using package Ringo to analyze Agilent Chip on chip array   Gabriel Wajnberg
• [BioC] Using package Ringo to analyze Agilent Chip on chip array   Gabriel Wajnberg
• [BioC] problems with strand in predictCoding   Jeremiah Degenhardt
• [BioC] problems with strand in predictCoding   Martin Morgan
• [BioC] problems with strand in predictCoding   Steve Lianoglou
• [BioC] distanceToNearest for GRanges?   Martin Morgan
• [BioC] problems with strand in predictCoding   Michael Lawrence
• [BioC] distanceToNearest for GRanges?   Tim Triche, Jr.
• [BioC] cummerbund Error in Volcanoplot   him
• [BioC] problems with strand in predictCoding   Tim Triche, Jr.
• [BioC] help with PubMed Central OAI   Chris Stubben
• [BioC] BSgenome.Celegans.UCSC.cd10 for WS220   Zhu, Lihua (Julie)
• [BioC] help with PubMed Central OAI   Duncan Temple Lang
• [BioC] Selected probes from a given probeset   Ramiro Rodríguez
• [BioC] problems with strand in predictCoding   Jeremiah Degenhardt
• [BioC] Motif search   Paul Shannon
• [BioC] problems with strand in predictCoding   Steve Lianoglou
• [BioC] Regarding MotIv and PICS package install   Dan Tenenbaum
• [BioC] BSgenome.Celegans.UCSC.cd10 for WS220   Hervé Pagès
• [BioC] Using package Ringo to analyze Agilent Chip on chip array   wei wang
• [BioC] problems with strand in predictCoding   Hervé Pagès
• [BioC] BSgenome.Celegans.UCSC.cd10 for WS220   Zhu, Lihua (Julie)
• [BioC] TMM factors   Mark Robinson
• [BioC] multi-level, multi-factor results interpretation.   Ingrid Lindquist
• [BioC] problems with strand in predictCoding   Jeremiah Degenhardt
• [BioC] Biostring: print sequence alignment to file   Hervé Pagès
• [BioC] A error in GAGE analysis   Javerjung Sandhu
• [BioC] GOstats - internal filtering?   Andrew Jaffe
• [BioC] PLS help: is it sound to normalized highthrouput qPCR arrays using vsn?   Cytochalasin
• [BioC] multi-level, multi-factor results interpretation.   Wolfgang Huber
• [BioC] Biostring: print sequence alignment to file   Martin Preusse
• [BioC] Reading of Limma output from the R+Bioconductor   Muralidharan V
• [BioC] Pooling of samples for array   Cytochalasin
• [BioC] seqbias : how to correct weight of mapped short reads?   Sang Chul Choi
• [BioC] 回复： TMM factors   Mark Robinson
• [BioC] venn diagrams   Stefanie Gerstberger
• [BioC] (no subject)   Sooby
• [BioC] edgeR library size   Sooby
• [BioC] seqbias : how to correct weight of mapped short reads?   Martin Morgan
• [BioC] venn diagrams   Steve Lianoglou
• [BioC] venn diagrams   wenhuo hu
• [BioC] Overlay Gene Expression on SNP (copy number) data   Ekta Jain
• [BioC] edgeR: tagwise dispersion in 2-factorial vs. 1-factorial design   Henning Wildhagen
• [BioC] Overlay Gene Expression on SNP (copy number) data   Steve Lianoglou
• [BioC] edgeR-calcNormFactors   chris Jhon
• [BioC] edgeR-calcNormFactors   Wolfgang Huber
• [BioC] Overlay Gene Expression on SNP (copy number) data   Paul Shannon
• [BioC] Selected probes from a given probeset   James W. MacDonald
• [BioC] GOstats - internal filtering?   James W. MacDonald
• [BioC] error with affycomp package   James W. MacDonald
• [BioC] GOstats - internal filtering?   Andrew Jaffe
• [BioC] GOstats - internal filtering?   James W. MacDonald
• [BioC] Gene-gene interaction analysis   Tengfei Yin
• [BioC] Manhattan plot for CNVs association results   Tengfei Yin
• [BioC] Overlay Gene Expression on SNP (copy number) data   Tengfei Yin
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   Paul Shannon
• [BioC] Problem with intraIDMapper   Marc Carlson
• [BioC] problem with loading DESeq after upgrading from R 2.14 to R 2.15   Yue Li
• [BioC] problem with loading DESeq after upgrading from R 2.14 to R 2.15   Yue Li
• [BioC] copyCountSegments(fit) failed exomeCopy   Dan Spiegelman
• [BioC] problem with loading DESeq after upgrading from R 2.14 to R 2.15   Steve Lianoglou
• [BioC] Normalized values in oligo::crlmm and oligo::snprma don't match?   Denise Mak
• [BioC] problem with loading DESeq after upgrading from R 2.14 to R 2.15   Yue Li
• [BioC] problem with loading DESeq after upgrading from R 2.14 to R 2.15   Dan Tenenbaum
• [BioC] problem with loading DESeq after upgrading from R 2.14 to R 2.15   Yue Li
• [BioC] problem with loading DESeq after upgrading from R 2.14 to R 2.15   Dan Tenenbaum
• [BioC] problem with loading DESeq after upgrading from R 2.14 to R 2.15   Yue Li
• [BioC] problem with loading DESeq after upgrading from R 2.14 to R 2.15   Dan Tenenbaum
• [BioC] problem with loading DESeq after upgrading from R 2.14 to R 2.15   James W. MacDonald
• [BioC] problem with loading DESeq after upgrading from R 2.14 to R 2.15   Yue Li
• [BioC] basic R question   Jing Huang
• [BioC] basic R question   Steve Lianoglou
• [BioC] basic R question   Tim Triche, Jr.
• [BioC] problem with loading DESeq after upgrading from R 2.14 to R 2.15   Yue Li
• [BioC] basic R question   Tim Triche, Jr.
• [BioC] Array weights in the 'removeBatchEffect' function?   bburla at botinst.uzh.ch
• [BioC] HTqPCR   wenhuo hu
• [BioC] Some particulars about rtracklayer::liftOver   Steve Lianoglou
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   nooshin
• [BioC] venn diagrams   Natasha Sahgal
• [BioC] Nimblegen promoter medip array platform design file problem   zeynep özkeserli
• [BioC] edgeR: effect of 'outlier' tags on differential expression calls   alessandro.guffanti at genomnia.com
• [BioC] Subtraction of Healthy control average from treatment averages   Paul, Cristina
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   Tim Triche, Jr.
• [BioC] Subtraction of Healthy control average from treatment averages   Sean Davis
• [BioC] Some particulars about rtracklayer::liftOver   Michael Lawrence
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   nooshin
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   Tim Triche, Jr.
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   nooshin
• [BioC] Using package Ringo to analyze Agilent Chip on chip array   Gabriel Wajnberg
• [BioC] basic R question   Jing Huang
• [BioC] HTqPCR   Heidi Dvinge
• [BioC] VariantAnnotation updated - error in predictCoding   bnorthoff at web.de
• [BioC] HTqPCR   wenhuo hu
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   Mercier Eloi
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   Zhu, Lihua (Julie)
• [BioC] VariantAnnotation updated - error in predictCoding   Valerie Obenchain
• [BioC] VariantAnnotation updated - error in predictCoding   Valerie Obenchain
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   Paul Shannon
• [BioC] RCurl problem   Ina Hoeschele
• [BioC] RCurl problem   James W. MacDonald
• [BioC] Complementing alleles in a VCF   Valerie Obenchain
• [BioC] GEOquery package   Ben Ganzfried
• [BioC] help with reduction operation using IRanges/GRanges   Abhishek Pratap
• [BioC] help with reduction operation using IRanges/GRanges   Kasper Daniel Hansen
• [BioC] Need to do z.test   Javerjung Sandhu
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   Zhu, Lihua (Julie)
• [BioC] help with reduction operation using IRanges/GRanges   Abhishek Pratap
• [BioC] help with reduction operation using IRanges/GRanges   Kasper Daniel Hansen
• [BioC] help with reduction operation using IRanges/GRanges   Steve Lianoglou
• [BioC] help with reduction operation using IRanges/GRanges   Abhishek Pratap
• [BioC] help with reduction operation using IRanges/GRanges   Steve Lianoglou
• [BioC] help with reduction operation using IRanges/GRanges   Michael Lawrence
• [BioC] Problems with section 3.4 in vignette GenomicRangesUseCases.pdf   Yue Li
• [BioC] edgeR: tagwise dispersion in 2-factorial vs. 1-factorial design   Gordon K Smyth
• [BioC] Array weights in the 'removeBatchEffect' function?   Gordon K Smyth
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   Paul Shannon
• [BioC] FW: Overlay Gene Expression on SNP (copy number) data   Ekta Jain
• [BioC] GEOquery package   Dan Tenenbaum
• [BioC] problems with strand in predictCoding   Bernd
• [BioC] FastqSampler not sampling correctly in ShortRead   Marcus Davy
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   nooshin
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   nooshin
• [BioC] Nimblegen promoter medip array platform design file problem   zeynep özkeserli
• [BioC] copyCountSegments(fit) failed exomeCopy   Michael Love
• [BioC] edgeR: effect of 'outlier' tags on differential expression calls   Gordon K Smyth
• [BioC] FastqSampler not sampling correctly in ShortRead   Martin Morgan
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   Zhu, Lihua (Julie)
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   Steve Lianoglou
• [BioC] Selected probes from a given probeset   Ramiro Rodríguez
• [BioC] Fwd: Selected probes from a given probeset   Ramiro Rodriguez
• [BioC] problems with strand in predictCoding   Valerie Obenchain
• [BioC] FW: Overlay Gene Expression on SNP (copy number) data   Tim Triche, Jr.
• [BioC] Agi4x44tPreProcess package- chr_coord and seq error   matthew vitalone
• [BioC] edgeR questions   Wang, Li
• [BioC] Design and not estimable coefficients   Dave Canvhet
• [BioC] help with reduction operation using IRanges/GRanges   Abhishek Pratap
• [BioC] edge-less pathways in graphite   Hamid Bolouri
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   Pj Dias
• [BioC] multi-level, multi-factor results interpretation   Ingrid Lindquist
• [BioC] edge-less pathways in graphite   Paul Shannon
• [BioC] edge-less pathways in graphite   Hamid Bolouri
• [BioC] help with reduction operation using IRanges/GRanges   Michael Lawrence
• [BioC] help with reduction operation using IRanges/GRanges   Abhishek Pratap
• [BioC] help with reduction operation using IRanges/GRanges   Steve Lianoglou
• [BioC] help with reduction operation using IRanges/GRanges   Abhishek Pratap
• [BioC] DESeq error thrown during estimateDispersions w/ coxReid method   Steve Lianoglou
• [BioC] help with reduction operation using IRanges/GRanges   Hervé Pagès
• [BioC] help with reduction operation using IRanges/GRanges   Michael Lawrence
• [BioC] help with reduction operation using IRanges/GRanges   Kasper Daniel Hansen
• [BioC] supervised & unsupervised analysis of samples of microarray data   wenhuo hu
• [BioC] supervised & unsupervised analysis of samples of microarray data   Tim Triche, Jr.
• [BioC] supervised & unsupervised analysis of samples of microarray data   Steve Lianoglou
• [BioC] supervised & unsupervised analysis of samples of microarray data   Tim Triche, Jr.
• [BioC] supervised & unsupervised analysis of samples of microarray data   wenhuo hu
• [BioC] problems with strand in predictCoding   Valerie Obenchain
• [BioC] Design and not estimable coefficients   Gordon K Smyth
• [BioC] edgeR: effect of 'outlier' tags on differential expression calls   alessandro.guffanti at genomnia.com
• [BioC] [Gviz] Plot Segmentation   Paul Theodor Pyl
• [BioC] Fwd: Selected probes from a given probeset   James W. MacDonald
• [BioC] Fwd: Selected probes from a given probeset   Ramiro Rodríguez
• [BioC] something wrong with my design matrix in edgeR   Wang, Li
• [BioC] Problems with section 3.4 in vignette GenomicRangesUseCases.pdf   Valerie Obenchain
• [BioC] Problems with section 3.4 in vignette GenomicRangesUseCases.pdf   Yue Li
• [BioC] help with reduction operation using IRanges/GRanges   Abhishek Pratap
• [BioC] help with reduction operation using IRanges/GRanges   Michael Lawrence
• [BioC] help with reduction operation using IRanges/GRanges   Tim Triche, Jr.
• [BioC] gene set enrichment analysis of RNA-Seq data   Paolo Guarnieri
• [BioC] edgeR questions   Gordon K Smyth
• [BioC] help with reduction operation using IRanges/GRanges   Abhishek Pratap
• [BioC] help with reduction operation using IRanges/GRanges   Michael Lawrence
• [BioC] gage   Luo Weijun
• [BioC] how to get mismatch or gap from pairwiseAlignment   wang peter
• [BioC] A error in GAGE analysis   Luo Weijun
• [BioC] nested factors in edgeR [was: something wrong with my design matrix in edgeR]   Gordon K Smyth
• [BioC] nested factors in edgeR   Gordon K Smyth
• [BioC] Problem in analysing Agilent single color data using LIMMA   Muralidharan V
• [BioC] Model matrix used in analysis of Agilent single color data   Muralidharan V
• [BioC] Model matrix used in analysis of Agilent single color data   Ekta Jain
• [BioC] how to get mismatch or gap from pairwiseAlignment   Hervé Pagès
• [BioC] Motif search -- access to JASPAR, MotIV package, more TF-PWM relationships?   Arno BioC
• [BioC] Filtering Codes   Muralidharan V
• [BioC] Problem in analysing Agilent single color data using LIMMA   James W. MacDonald
• [BioC] RCytoscape couldn't connect to host   Eleonora Lusito
• [BioC] Motif search -- access to JASPAR, MotIV package, , more TF-PWM relationships?   Vincent Schulz
• [BioC] Subset of samples with VariantAnnotation::readVcf   Richard Pearson
• [BioC] Subset of samples with VariantAnnotation::readVcf   Valerie Obenchain
• [BioC] Fwd: RCytoscape couldn't connect to host   Paul Shannon
• [BioC] BSgenome.Hsapiens.UCSC.hg19   aparna p
• [BioC] combining hgu133a and hgu133b   Mayte Suarez-Farinas
• [BioC] NaN p-values from edgeR   Jared Bischof
• [BioC] how to get mismatch or gap from pairwiseAlignment   Martin Morgan
• [BioC] FastqSampler not sampling correctly in ShortRead   Marcus Davy
• [BioC] FastqSampler not sampling correctly in ShortRead   Martin Morgan
• [BioC] combining hgu133a and hgu133b   Mayte Suarez-Farinas
• [BioC] Calculating alignment scores from aligned sequences   Hervé Pagès
• [BioC] combining hgu133a and hgu133b   James W. MacDonald
• [BioC] edge-less pathways in graphite   Paul Shannon
• [BioC] combining hgu133a and hgu133b   Steve Lianoglou
• [BioC] Motif search -- access to JASPAR, MotIV package, , more TF-PWM relationships?   Arno BioC
• [BioC] IRanges: how to emulate findOverlaps(multiple=TRUE)?   Michael.Dondrup at uni.no
• [BioC] NaN p-values from edgeR   Wolfgang Huber
• [BioC] errors in FRMA   Mayte Suarez-Farinas
• [BioC] IRanges: how to emulate findOverlaps(multiple=TRUE)?   Steve Lianoglou
• [BioC] SVA package: remove batch effects using ComBat   Tim Smith
• [BioC] IRanges: how to emulate findOverlaps(multiple=TRUE)?   Michael Lawrence
• [BioC] errors in FRMA   Matthew McCall
• [BioC] errors in FRMA   Mayte Suarez-Farinas
• [BioC] errors in FRMA   Matthew McCall
• [BioC] errors in FRMA   Mayte Suarez-Farinas
• [BioC] NaN p-values from edgeR   Gordon K Smyth
• [BioC] Filtering Codes (analysing Agilent 8x60k using limma)   Gordon K Smyth
• [BioC] gene set enrichment analysis of RNA-Seq data   Gordon K Smyth
• [BioC] Question regarding COA plot generated by made4 package   Barbara Shih
• [BioC] NaN p-values from edgeR   Guffanti Alessandro
• [BioC] NaN p-values from edgeR   Jared Bischof
• [BioC] Design and not estimable coefficients   Dave Canvhet
• [BioC] Help strange GSEA error   Alejandro Quiroz

Last message date: Mon Apr 30 18:26:36 CEST 2012
Archived on: Tue May 1 16:34:38 CEST 2012

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