September 2014 Archives by date
Starting: Mon Sep 1 09:10:54 CEST 2014
Ending: Tue Sep 16 00:40:48 CEST 2014
Messages: 241
- [BioC] Question on Gviz
Hahne, Florian
- [BioC] QuasR question
Michael Stadler
- [BioC] QuasR question
Daniel Soronellas
- [BioC] Plotting arbitrary lines at Gviz plotTracks
Hahne, Florian
- [BioC] QuasR question
Michael Stadler
- [BioC] Plotting arbitrary lines at Gviz plotTracks
Hahne, Florian
- [BioC] edgeR: mixing technical replicates from Illumina HiSeq and MiSeq
Nick N
- [BioC] edgeR contrast
Pickl, Julia
- [BioC] edgeR contrast
Pickl, Julia
- [BioC] edgeR contrast
Julia [guest]
- [BioC] Interspecies differential expression of orthologs with Edger
assaf www
- [BioC] Model Design
James W. MacDonald
- [BioC] Model Design
Sander van der Zeeuw
- [BioC] edgeR contrast
James W. MacDonald
- [BioC] flowviz
Mike
- [BioC] RUVSeq package installation
davide risso
- [BioC] RUVSeq installation problem
davide risso
- [BioC] Interspecies differential expression of orthologs with Edger
Gordon K Smyth
- [BioC] edgeR: mixing technical replicates from Illumina HiSeq and MiSeq
Gordon K Smyth
- [BioC] FDR default in edgeR
Son Pham
- [BioC] Plot exon number per gene and transcript lengths
Jon Bråte
- [BioC] Error with autoplot of transcriptDB object
Mark Dunning
- [BioC] Job Opening: Computational Biologist @ Genentech Bioinformatics
Michael Lawrence
- [BioC] edgeR contrast
James W. MacDonald
- [BioC] FDR default in edgeR
James W. MacDonald
- [BioC] edgeR factorial experiment contrasts
Jahn Davik [guest]
- [BioC] DNAStringsSet - remove multiple entries with same name
deepti anand
- [BioC] DNAStringsSet - remove multiple entries with same name
Hervé Pagès
- [BioC] edgeR factorial experiment contrasts
James W. MacDonald
- [BioC] edgeR factorial experiment contrasts
Jahn Davik
- [BioC] edgeR factorial experiment contrasts
Jahn Davik
- [BioC] edgeR factorial experiment contrasts
James W. MacDonald
- [BioC] hugene10sttranscriptclusterACCNUM has no mappings
Marc Carlson
- [BioC] hugene10sttranscriptclusterACCNUM has no mappings
Thomas Pfau
- [BioC] edgeR contrast
Pickl, Julia
- [BioC] edgeR factorial experiment contrasts
Jahn Davik
- [BioC] Error running makeTranscriptDbFromGFF in GenomicFeatures
Jon Bråte
- [BioC] GWASTools: quasi-/perfect linear separation
Danica [guest]
- [BioC] Error running makeTranscriptDbFromGFF in GenomicFeatures
Michael Lawrence
- [BioC] edgeR factorial experiment contrasts
James W. MacDonald
- [BioC] Error running makeTranscriptDbFromGFF in GenomicFeatures
Jon Bråte
- [BioC] removeBatchEffect and random effect
Rao,Xiayu
- [BioC] SAM analysis of two color microarray data
Shan-e-Ahmed Raza [guest]
- [BioC] Error running makeTranscriptDbFromGFF in GenomicFeatures
Michael Lawrence
- [BioC] hugene10sttranscriptclusterACCNUM has no mappings
Marc Carlson
- [BioC] SAM analysis of two color microarray data
James W. MacDonald
- [BioC] Oligo package: paCalls question
Alison Ziesel
- [BioC] hugene10sttranscriptclusterACCNUM has no mappings
James W. MacDonald
- [BioC] hugene10sttranscriptclusterACCNUM has no mappings
Marc Carlson
- [BioC] Oligo package: paCalls question
James W. MacDonald
- [BioC] Oligo package: paCalls question
Alison Ziesel
- [BioC] Announcement about the new support site
Marc Carlson
- [BioC] DNAStringsSet - remove multiple entries with same name
Hervé Pagès
- [BioC] Oligo package: paCalls question
James W. MacDonald
- [BioC] Oligo package: paCalls question
Alison Ziesel
- [BioC] Oligo package: paCalls question
cstrato
- [BioC] MEDIPS: how does MEDIPS define a methylated region / cluster?
Allen [guest]
- [BioC] virtualArray package
Karl [guest]
- [BioC] HTSeq-Count
Julia [guest]
- [BioC] HTSeq-Count
Yuan Hao
- [BioC] Access to BiocGenerics 0.11.4 package
gregory voisin
- [BioC] HTSeq-Count
Pickl, Julia
- [BioC] Access to BiocGenerics 0.11.4 package
James W. MacDonald
- [BioC] Access to BiocGenerics 0.11.4 package
gregory voisin
- [BioC] HTSeq-Count
Steve Lianoglou
- [BioC] Access to BiocGenerics 0.11.4 package
Steve Lianoglou
- [BioC] Access to BiocGenerics 0.11.4 package
gregory voisin
- [BioC] RNA-seq differentially expressed gene finding methods
Son Pham
- [BioC] RNA-seq differentially expressed gene finding methods
Richard Friedman
- [BioC] RNA-seq differentially expressed gene finding methods
Paul Geeleher
- [BioC] RNA-seq differentially expressed gene finding methods
Devon Ryan
- [BioC] RNA-seq differentially expressed gene finding methods
Son Pham
- [BioC] HTSeq-Count
Yuan Hao
- [BioC] Trouble installing topGO package
Eric Fournier
- [BioC] Interspecies differential expression of orthologs with Edger
assaf www
- [BioC] [devteam-bioc] parallel BAM sorting with Rsamtools
Jens Reeder
- [BioC] edgeR: mixing technical replicates from Illumina HiSeq and MiSeq
Nikolay N.
- [BioC] edgeR: mixing technical replicates from Illumina HiSeq and MiSeq
Ryan C. Thompson
- [BioC] MEDIPS: how does MEDIPS define a methylated region / cluster?
Lukas Chavez
- [BioC] RNA-seq differentially expressed gene finding methods
Wolfgang Huber
- [BioC] removeBatchEffect and random effect
Gordon K Smyth
- [BioC] Interspecies differential expression of orthologs with Edger
Gordon K Smyth
- [BioC] RNA-seq differentially expressed gene finding methods
Gordon K Smyth
- [BioC] RNA-seq differentially expressed gene finding methods
Gordon K Smyth
- [BioC] Motif enrichment analysis: Error in transfac format and background frequencies from BSGenome
deepti anand
- [BioC] MEDIPS: how does MEDIPS define a methylated region / cluster?
Chong Kim San Allen
- [BioC] Motif enrichment analysis: Error in transfac format and background frequencies from BSGenome
Robert Stojnic
- [BioC] MEDIPS: how does MEDIPS define a methylated region / cluster?
Chong Kim San Allen
- [BioC] Interspecies differential expression of orthologs with Edger
assaf www
- [BioC] Interspecies differential expression of orthologs with Edger
Sean Davis
- [BioC] Motif enrichment analysis: Error in transfac format and background frequencies from BSGenome
deepti anand
- [BioC] DNAStringsSet - remove multiple entries with same name
deepti anand
- [BioC] Consultation about combing batches
Shaowei Wu
- [BioC] edgeR factorial experiment contrasts
Jahn Davik
- [BioC] Interspecies differential expression of orthologs with Edger
assaf www
- [BioC] DiffBind time course
Enrico Ferrero
- [BioC] Interspecies differential expression of orthologs with Edger
Steve Lianoglou
- [BioC] Tissue heterogeneity and TMM normalization
Ni Feng
- [BioC] Test Statistic in nbinomialTest in DESeq???
Sarven Sabunciyan [guest]
- [BioC] HTSeq-Count
Pickl, Julia
- [BioC] MEDIPS: how does MEDIPS define a methylated region / cluster?
Lukas Chavez
- [BioC] HTSeq-Count
Pickl, Julia
- [BioC] Motif enrichment analysis: Error in transfac format and background frequencies from BSGenome
Robert Stojnic
- [BioC] normalization and batch correction across multiple project
Adaikalavan Ramasamy
- [BioC] HTSeq-Count
Steve Lianoglou
- [BioC] Motif enrichment analysis: Error in transfac format and background frequencies from BSGenome
deepti anand
- [BioC] Trouble installing topGO package
Eric Fournier
- [BioC] Interspecies differential expression of orthologs with Edger
assaf www
- [BioC] Interspecies differential expression of orthologs with Edger
Steve Lianoglou
- [BioC] Tissue heterogeneity and TMM normalization
Ryan C. Thompson
- [BioC] Interspecies differential expression of orthologs with Edger
assaf www
- [BioC] Interspecies differential expression of orthologs with Edger
Gordon K Smyth
- [BioC] Converting .gpr files to .csv files
Adriana Charles [guest]
- [BioC] normalization and batch correction across multiple project
Gordon K Smyth
- [BioC] Converting .gpr files to .csv files
James W. MacDonald
- [BioC] Consensus sequence
James W. MacDonald
- [BioC] Interspecies differential expression of orthologs with Edger
Gordon K Smyth
- [BioC] Rsubread featureCounts unexpected strand-specifc counts with Ensembl GTF
Wei Shi
- [BioC] insertion site detection
Alpesh Querer
- [BioC] insertion site detection
Wei Shi
- [BioC] normalization and batch correction across multiple project
Adaikalavan Ramasamy
- [BioC] Tissue heterogeneity and TMM normalization
Wolfgang Huber
- [BioC] Test Statistic in nbinomialTest in DESeq???
Wolfgang Huber
- [BioC] positively correlated genes
karthik [guest]
- [BioC] Gostats Hypergeometric tests for non model organisms Kegg pathway
Claire [guest]
- [BioC] unable to set sampleNames after combine (from beadarray package) on ExpressionSetIllumina
Adaikalavan Ramasamy
- [BioC] Interspecies differential expression of orthologs with Edger
assaf www
- [BioC] DiffBind time course
Rory Stark
- [BioC] Motif enrichment analysis: Error in transfac format and background frequencies from BSGenome
Diego Diez
- [BioC] DiffBind time course
Enrico Ferrero
- [BioC] Tissue heterogeneity and TMM normalization
Ni Feng
- [BioC] DiffBind time course
Rory Stark
- [BioC] Tissue heterogeneity and TMM normalization
davide risso
- [BioC] How to get genes within a GO category of 'GOstat' results?
Atul
- [BioC] Tissue heterogeneity and TMM normalization
Ni Feng
- [BioC] How to get genes within a GO category of 'GOstat' results?
James W. MacDonald
- [BioC] Gostats Hypergeometric tests for non model organisms Kegg pathway
Luo Weijun
- [BioC] FlowCore Question
Mike
- [BioC] positively correlated genes
Gordon K Smyth
- [BioC] barcode support for other platforms
Romi Admanit [guest]
- [BioC] barcode support for other platforms
Johnson, William Evan
- [BioC] barcode support for other platforms
Matthew McCall
- [BioC] Workshop Statistical Learning of Biological Systems - Ascona, Switzerland, May 31 to June 5, 2015
Wolfgang Huber
- [BioC] power calculation of RNA-Seq
Yanzhu Lin
- [BioC] Organism annotation package created with makeOrgPackage doesn't install properly
Lasse Nielsen [guest]
- [BioC] power calculation of RNA-Seq
Sean Davis
- [BioC] power calculation of RNA-Seq
Zhijin Wu
- [BioC] Organism annotation package created with makeOrgPackage doesn't install properly
James W. MacDonald
- [BioC] [JOB] NIH-Wide Stadtman Tenure-Track Recruitment
Sean Davis
- [BioC] Error using Bsmooth.tstat due to NAs
Fides Lay [guest]
- [BioC] Fwd: [JOB] NIH-Wide Stadtman Tenure-Track Recruitment
Sean Davis
- [BioC] power calculation of RNA-Seq
Yanzhu Lin
- [BioC] GWASTools: quasi-/perfect linear separation
Stephanie M. Gogarten
- [BioC] how to fetch GO categories from Chinese hamster genome
upendra kumar devisetty
- [BioC] power calculation of RNA-Seq
Yanzhu Lin
- [BioC] unable to set sampleNames after combine (from beadarray package) on ExpressionSetIllumina
Martin Morgan
- [BioC] Consensus sequence
Hervé Pagès
- [BioC] Consensus sequence
Hervé Pagès
- [BioC] XVector
Hervé Pagès
- [BioC] 回复: XVector
Hervé Pagès
- [BioC] Repeat masker sequences as GRanges object
Hermann Norpois
- [BioC] unable to set sampleNames after combine (from beadarray package) on ExpressionSetIllumina
Adaikalavan Ramasamy
- [BioC] error in report(qa) from pkg ShortRead
Timothée Flutre
- [BioC] unable to set sampleNames after combine (from beadarray package) on ExpressionSetIllumina
Mike Smith
- [BioC] power calculation of RNA-Seq
Wu, Hao
- [BioC] error in report(qa) from pkg ShortRead
Martin Morgan
- [BioC] no method for coercing S4 class to a vector
Ninni Nahm [guest]
- [BioC] MEDIPS: how does MEDIPS define a methylated region / cluster?
Chong Kim San Allen
- [BioC] log2 as input in limma
R [guest]
- [BioC] power calculation of RNA-Seq
Yanzhu Lin
- [BioC] positively correlated genes
Sindre Lee
- [BioC] Repeat masker sequences as GRanges object
Hermann Norpois
- [BioC] error in report(qa) from pkg ShortRead
Timothée Flutre
- [BioC] no method for coercing S4 class to a vector
Andrzej Oleś
- [BioC] log2 as input in limma
James W. MacDonald
- [BioC] Repeat masker sequences as GRanges object
James W. MacDonald
- [BioC] no method for coercing S4 class to a vector
Ninni Nahm
- [BioC] DiffBind annotation
Rory Stark
- [BioC] Consensus sequence
James W. MacDonald
- [BioC] dataset dim for siggenes
ferreirafm at usp.br
- [BioC] Changing the x axis size using tracks (ggbio)
Vinicius Henrique da Silva
- [BioC] dataset dim for siggenes
James W. MacDonald
- [BioC] MEDIPS: how does MEDIPS define a methylated region / cluster?
Lukas Chavez
- [BioC] Consensus sequence
Hervé Pagès
- [BioC] [Bioc-devel] AnnotatioDbi Biostrings load order breaks GenomicFiles summary method
Dan Tenenbaum
- [BioC] dataset dim for siggenes
ferreirafm at usp.br
- [BioC] Packages for GO and KEGG analysis on RNAseq data
Merienne Nicolas
- [BioC] Packages for GO and KEGG analysis on RNAseq data
Zhu, Lihua (Julie)
- [BioC] Repeat masker sequences as GRanges object
Hervé Pagès
- [BioC] what drives sample outliers in 450k (detectOutlier, lumi)
Victoria Svinti
- [BioC] Repeat masker sequences as GRanges object
James W. MacDonald
- [BioC] Packages for GO and KEGG analysis on RNAseq data
Steve Lianoglou
- [BioC] dataset dim for siggenes
ferreirafm at usp.br
- [BioC] Repeat masker sequences as GRanges object
Michael Lawrence
- [BioC] dataset dim for siggenes
James W. MacDonald
- [BioC] Repeat masker sequences as GRanges object
Hervé Pagès
- [BioC] Repeat masker sequences as GRanges object
Hervé Pagès
- [BioC] important announcement
Marc Carlson
- [BioC] dataset dim for siggenes
ferreirafm at usp.br
- [BioC] positively correlated genes
Gordon K Smyth
- [BioC] positively correlated genes
Sindre Lee
- [BioC] positively correlated genes
Gordon K Smyth
- [BioC] Repeat masker sequences as GRanges object
Michael Lawrence
- [BioC] KEGGprofile: "Error in phyper - Non-numeric argument to mathematical function" when using non model organism
stefano romano
- [BioC] topGO: how to visualize gene in GO enriched categories?
stefano romano
- [BioC] Ask help for Rcpp
Bo [guest]
- [BioC] Ask help for Rcpp
Martin Morgan
- [BioC] Bioinformatics researching Schizophrenia
Chris Clarkson [guest]
- [BioC] HGU133Plus2 CDF vs hgu133plus2hsentrezgcdf CDF (30% difference in results)
Mahes Muniandy [guest]
- [BioC] KEGGprofile: "Error in phyper - Non-numeric argument to mathematical function" when using non model organism
zhao shilin
- [BioC] DE analysis of PCR array [was: dataset dim for siggenes]
Gordon K Smyth
- [BioC] Packages for GO and KEGG analysis on RNAseq data
Gordon K Smyth
- [BioC] HGU133Plus2 CDF vs hgu133plus2hsentrezgcdf CDF (30% difference in results)
Steve Lianoglou
- [BioC] export funciton alters ranges in output BED file
do r
- [BioC] Error using Bsmooth.tstat due to NAs
Kasper Daniel Hansen
- [BioC] Error using Bsmooth.tstat due to NAs
Kasper Daniel Hansen
- [BioC] export funciton alters ranges in output BED file
Hervé Pagès
- [BioC] export funciton alters ranges in output BED file
John Blischak
- [BioC] error: "'names' attribute [16] must be the same length as the vector [2]", using Making Organism packages use of makeOrgPackage()
stefano romano
- [BioC] MEDIPS: how does MEDIPS define a methylated region / cluster?
Chong Kim San Allen
- [BioC] Repeat masker sequences as GRanges object
Hermann Norpois
- [BioC] NA values in Biomart query
Chapeaublanc Elodie
- [BioC] Interaction categorical/continuous variable DESeq2
Hugo Varet
- [BioC] Course: Learning R / Bioconductor for Sequence Analysis, Seattle, WA Oct 27-29
Martin Morgan
- [BioC] affymetrix probe databases
Pau Marc Muñoz Torres
- [BioC] KEGGprofile: "Error in phyper - Non-numeric argument to mathematical function" when using non model organism
zhao shilin
- [BioC] HGU133Plus2 CDF vs hgu133plus2hsentrezgcdf CDF (30% difference in results)
James W. MacDonald
- [BioC] affymetrix probe databases
James W. MacDonald
- [BioC] Course: Learning R / Bioconductor for Sequence Analysis, Seattle, WA Oct 27-29
Son Pham
- [BioC] Course: Learning R / Bioconductor for Sequence Analysis, Seattle, WA Oct 27-29
Dale N. Richardson
- [BioC] Course: Learning R / Bioconductor for Sequence Analysis, Seattle, WA Oct 27-29
Thuy Do
- [BioC] MEDIPS: how does MEDIPS define a methylated region / cluster?
Lukas Chavez
- [BioC] Course: Learning R / Bioconductor for Sequence Analysis, Seattle, WA Oct 27-29
Martin Morgan
- [BioC] Error with autoplot of transcriptDB object
Dan Tenenbaum
- [BioC] PI position at EMBL-EBI (Cambridge UK)
Wolfgang Huber
- [BioC] Interaction categorical/continuous variable DESeq2
Michael Love
- [BioC] Interaction categorical/continuous variable DESeq2
Wolfgang Huber
- [BioC] Course: Learning R / Bioconductor for Sequence Analysis, Seattle, WA Oct 27-29
Dale N. Richardson
- [BioC] design matrix in limma
KC [guest]
- [BioC] HGU133Plus2 CDF vs hgu133plus2hsentrezgcdf CDF (30% difference in results)
Marcin Cieślik
- [BioC] Important announcement about our new support site
Marc Carlson
Last message date:
Tue Sep 16 00:40:48 CEST 2014
Archived on: Tue Sep 16 00:41:01 CEST 2014
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