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Bioc-devel April 2014

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Alejandro Reyes

Last active: Apr 22, 2014
2 msgs
Alejandro Reyes r+w permissions in release branches Apr 22, 2014 Alejandro Reyes r+w permissions in release branches Apr 22, 2014

Andrzej Oleś

Last active: Apr 22, 2014
1 msg
Andrzej Oleś r+w permissions in release branches Apr 22, 2014

Arora, Sonali

Last active: Apr 3, 2014
3 msgs
Arora, Sonali beadarray warning (seqlevelsStyle?) Apr 1, 2014 Arora, Sonali beadarray warning (seqlevelsStyle?) Apr 1, 2014 Arora, Sonali renameSeqlevels name matching Apr 3, 2014

Bernd Fischer

Last active: Apr 1, 2014
1 msg
Bernd Fischer svn repository for data experiment packages now having branches too Apr 1, 2014

Charles Plessy

Last active: Apr 8, 2014
1 msg
Charles Plessy No propagation from the GitHub bridge (clonotypeR package). Apr 8, 2014

Cook, Malcolm

Last active: Apr 1, 2014
2 msgs
Cook, Malcolm Bioconductor newsletter: April 2014 Apr 1, 2014 Cook, Malcolm Subsetting Lists by Lists Apr 1, 2014

Dan Du

Last active: Apr 9, 2014
1 msg
Dan Du Commit Problem Apr 9, 2014

Dan Gatti

Last active: Apr 18, 2014
1 msg
Dan Gatti New package version and BiocCheck Apr 18, 2014

Dan Tenenbaum

Last active: Apr 24, 2014
26 msgs
Dan Tenenbaum BiocCheck: Allowed formats for vignette source Apr 1, 2014 Dan Tenenbaum Bioconductor packages for R-3.1.0 beta on OSX 10.9 Apr 4, 2014 Dan Tenenbaum Bioconductor support for R-3.1.0 on Mavericks (Mac OS X 10.9) Apr 4, 2014 Dan Tenenbaum unexpected build and check error Apr 6, 2014 Dan Tenenbaum Bioconductor packages for R-3.1.0 beta on OSX 10.9 Apr 6, 2014 Dan Tenenbaum git-svn bridge down? Apr 7, 2014 Dan Tenenbaum git-svn bridge down? Apr 7, 2014 Dan Tenenbaum Preparing package release notes Apr 7, 2014 Dan Tenenbaum git-svn bridge down? Apr 8, 2014 Dan Tenenbaum git-svn bridge down? Apr 8, 2014 Dan Tenenbaum git-svn bridge down? Apr 8, 2014 Dan Tenenbaum git-svn bridge down? Apr 8, 2014 Dan Tenenbaum Old version of packages Apr 10, 2014 Dan Tenenbaum Dependency on windowing systems in the flowCore package Apr 10, 2014 Dan Tenenbaum Important: Bioconductor 2.14 branch to be created today Apr 11, 2014 Dan Tenenbaum Important: Bioconductor 2.14 branch to be created today Apr 11, 2014 Dan Tenenbaum BioC 2.14 branch created Apr 11, 2014 Dan Tenenbaum Bioconductor 2.14 is released Apr 14, 2014 Dan Tenenbaum biocLite “no packages in repository” error Apr 15, 2014 Dan Tenenbaum biocLite “no packages in repository” error Apr 15, 2014 Dan Tenenbaum biocLite “no packages in repository” error Apr 15, 2014 Dan Tenenbaum Can\'t load new BioC packages Apr 15, 2014 Dan Tenenbaum New package version and BiocCheck Apr 18, 2014 Dan Tenenbaum New package version and BiocCheck Apr 18, 2014 Dan Tenenbaum Package vignette and knitr Apr 22, 2014 Dan Tenenbaum git svn bridge is broken Apr 24, 2014

Davide Risso

Last active: Apr 22, 2014
2 msgs
Davide Risso Package vignette and knitr Apr 22, 2014 Davide Risso Package vignette and knitr Apr 22, 2014

Diego Diez

Last active: Apr 6, 2014
2 msgs
Diego Diez Bioconductor packages for R-3.1.0 beta on OSX 10.9 Apr 4, 2014 Diego Diez Bioconductor packages for R-3.1.0 beta on OSX 10.9 Apr 6, 2014

Gabriel Becker

Last active: Apr 24, 2014
4 msgs
Gabriel Becker A question on IRanges package Apr 3, 2014 Gabriel Becker Packaging a medium/large project Apr 16, 2014 Gabriel Becker error in summary method for KEGGHyperGResult Apr 24, 2014 Gabriel Becker error in summary method for KEGGHyperGResult Apr 24, 2014

Gustavo H. Esteves

Last active: Apr 10, 2014
2 msgs
Gustavo H. Esteves Old version of packages Apr 10, 2014 Gustavo H. Esteves Old version of packages Apr 10, 2014

Henrik Bengtsson

Last active: Apr 21, 2014
2 msgs
Henrik Bengtsson Rsamtools: Is extdata/ex1.bam.bai outdated? Apr 18, 2014 Henrik Bengtsson Rsamtools: Is extdata/ex1.bam.bai outdated? Apr 21, 2014

Hervé Pagès

Last active: Apr 30, 2014
23 msgs
Hervé Pagès Subsetting Lists by Lists Apr 1, 2014 Hervé Pagès Subsetting Lists by Lists Apr 1, 2014 Hervé Pagès Subsetting Lists by Lists Apr 1, 2014 Hervé Pagès Subsetting Lists by Lists Apr 1, 2014 Hervé Pagès Subsetting Lists by Lists Apr 1, 2014 Hervé Pagès preservation of names by translate,DNAStringSet Apr 3, 2014 Hervé Pagès Subsetting Lists by Lists Apr 3, 2014 Hervé Pagès rownames in SummerizedExperiments Apr 6, 2014 Hervé Pagès "[[<-" method dispatch and GenomicRanges Apr 9, 2014 Hervé Pagès compare generics Apr 10, 2014 Hervé Pagès seqlevelsStyle<- doesn't work for GRanges object Apr 11, 2014 Hervé Pagès suggestion about bioconductor package-- BSgenome.Hsapiens.NCBI.GRCh38 Apr 16, 2014 Hervé Pagès suggestion about bioconductor package-- BSgenome.Hsapiens.NCBI.GRCh38 Apr 16, 2014 Hervé Pagès metadata() in BiocGenerics? Apr 16, 2014 Hervé Pagès S4Vectors package Apr 17, 2014 Hervé Pagès suggestion about bioconductorpackage-- BSgenome.Hsapiens.NCBI.GRCh38 Apr 20, 2014 Hervé Pagès suggestion about bioconductorpackage-- BSgenome.Hsapiens.NCBI.GRCh38 Apr 20, 2014 Hervé Pagès metadata() in BiocGenerics? Apr 22, 2014 Hervé Pagès IRanges:::safeExplode Apr 23, 2014 Hervé Pagès 'memory not mapped' in trimLRpatterns Apr 25, 2014 Hervé Pagès r+w permissions in release branches Apr 25, 2014 Hervé Pagès rbind,DataFrame vs rbind.data.frame Apr 29, 2014 Hervé Pagès rbind,DataFrame vs rbind.data.frame Apr 30, 2014

James W. MacDonald

Last active: Apr 24, 2014
1 msg
James W. MacDonald error in summary method for KEGGHyperGResult Apr 24, 2014

Jonathon Hill

Last active: Apr 29, 2014
3 msgs
Jonathon Hill Rsamtools applyPileups function not merging positions from multiple files if not identical Apr 21, 2014 Jonathon Hill Rsamtools applyPileups function not merging positions from multiple files if not identical Apr 22, 2014 Jonathon Hill Rsamtools applyPileups function not merging positions from multiple files if not identical Apr 29, 2014

Josef Spidlen

Last active: Apr 23, 2014
1 msg
Josef Spidlen Dependency on windowing systems in the flowCore package Apr 23, 2014

Julian Gehring

Last active: Apr 22, 2014
12 msgs
Julian Gehring BiocCheck: Allowed formats for vignette source Apr 1, 2014 Julian Gehring git-svn bridge down? Apr 7, 2014 Julian Gehring git-svn bridge down? Apr 7, 2014 Julian Gehring git-svn bridge down? Apr 8, 2014 Julian Gehring git-svn bridge down? Apr 8, 2014 Julian Gehring Packaging a medium/large project Apr 16, 2014 Julian Gehring Packaging a medium/large project Apr 16, 2014 Julian Gehring BiocUpgrades updates to devel instead of stable Apr 17, 2014 Julian Gehring BiocUpgrades updates to devel instead of stable Apr 22, 2014 Julian Gehring BiocUpgrades updates to devel instead of stable Apr 22, 2014 Julian Gehring r+w permissions in release branches Apr 22, 2014 Julian Gehring r+w permissions in release branches Apr 22, 2014

Kasper Daniel Hansen

Last active: Apr 30, 2014
6 msgs
Kasper Daniel Hansen Dependency on windowing systems in the flowCore package Apr 10, 2014 Kasper Daniel Hansen r+w permissions in release branches Apr 22, 2014 Kasper Daniel Hansen r+w permissions in release branches Apr 22, 2014 Kasper Daniel Hansen r+w permissions in release branches Apr 24, 2014 Kasper Daniel Hansen r+w permissions in release branches Apr 30, 2014 Kasper Daniel Hansen r+w permissions in release branches Apr 30, 2014

Kevin Ushey

Last active: Apr 28, 2014
6 msgs
Kevin Ushey Dependency on windowing systems in the flowCore package Apr 10, 2014 Kevin Ushey Dependency on windowing systems in the flowCore package Apr 10, 2014 Kevin Ushey Lazy evaluation and S4 methods Apr 23, 2014 Kevin Ushey Lazy evaluation and S4 methods Apr 23, 2014 Kevin Ushey Lazy evaluation and S4 methods Apr 23, 2014 Kevin Ushey Bug in as.data.frame method for RangedData? Apr 28, 2014

Kieran O'Neill

Last active: Apr 22, 2014
4 msgs
Kieran O'Neill Dependency on windowing systems in the flowCore package Apr 10, 2014 Kieran O'Neill Dependency on windowing systems in the flowCore package Apr 10, 2014 Kieran O'Neill Dependency on windowing systems in the flowCore package Apr 10, 2014 Kieran O'Neill Dependency on windowing systems in the flowCore package Apr 22, 2014

Lance Parsons

Last active: Apr 30, 2014
1 msg
Lance Parsons Gviz AnnotationTrack ylim patch Apr 30, 2014

Laurent Gatto

Last active: Apr 11, 2014
3 msgs
Laurent Gatto svn repository for data experiment packages now having branches too Apr 1, 2014 Laurent Gatto compare generics Apr 9, 2014 Laurent Gatto compare generics Apr 11, 2014

Luo Weijun

Last active: Apr 7, 2014
3 msgs
Luo Weijun unexpected build and check error Apr 4, 2014 Luo Weijun unexpected build and check error Apr 6, 2014 Luo Weijun unexpected build and check error Apr 7, 2014

Marc Carlson

Last active: Apr 17, 2014
1 msg
Marc Carlson strange spam from biocbuild Apr 17, 2014

Mark Dunning

Last active: Apr 1, 2014
1 msg
Mark Dunning beadarray warning (seqlevelsStyle?) Apr 1, 2014

Martin Morgan

Last active: Apr 30, 2014
17 msgs
Martin Morgan A question on IRanges package Apr 3, 2014 Martin Morgan A question on IRanges package Apr 4, 2014 Martin Morgan unexpected build and check error Apr 5, 2014 Martin Morgan rownames in SummerizedExperiments Apr 6, 2014 Martin Morgan Restrictions on findOverlaps parameters with SummarizedExperiment objects Apr 11, 2014 Martin Morgan Dependency on windowing systems in the flowCore package Apr 18, 2014 Martin Morgan suggestion about bioconductorpackage-- BSgenome.Hsapiens.NCBI.GRCh38 Apr 20, 2014 Martin Morgan suggestion about bioconductorpackage-- BSgenome.Hsapiens.NCBI.GRCh38 Apr 20, 2014 Martin Morgan Rsamtools: Is extdata/ex1.bam.bai outdated? Apr 21, 2014 Martin Morgan Rsamtools applyPileups function not merging positions from multiple files if not identical Apr 21, 2014 Martin Morgan BiocUpgrades updates to devel instead of stable Apr 22, 2014 Martin Morgan Rsamtools applyPileups function not merging positions from multiple files if not identical Apr 23, 2014 Martin Morgan r+w permissions in release branches Apr 23, 2014 Martin Morgan CITATION on the Bioc package landing page? Apr 25, 2014 Martin Morgan Missing seqinfo method for BamFileList? Apr 25, 2014 Martin Morgan Rsamtools applyPileups function not merging positions from multiple files if not identical Apr 29, 2014 Martin Morgan r+w permissions in release branches Apr 30, 2014

Martin Rijlaarsdam

Last active: Apr 1, 2014
1 msg
Martin Rijlaarsdam beadarray warning (seqlevelsStyle?) Apr 1, 2014

Michael Lawrence

Last active: Apr 30, 2014
22 msgs
Michael Lawrence Subsetting Lists by Lists Apr 1, 2014 Michael Lawrence Subsetting Lists by Lists Apr 1, 2014 Michael Lawrence Subsetting Lists by Lists Apr 1, 2014 Michael Lawrence Conflicting definitions for function redefined as S4 generics Apr 3, 2014 Michael Lawrence renameSeqlevels name matching Apr 3, 2014 Michael Lawrence renameSeqlevels name matching Apr 3, 2014 Michael Lawrence A question on IRanges package Apr 3, 2014 Michael Lawrence A question on IRanges package Apr 3, 2014 Michael Lawrence preservation of names by translate,DNAStringSet Apr 3, 2014 Michael Lawrence A question on IRanges package Apr 3, 2014 Michael Lawrence rownames in SummerizedExperiments Apr 6, 2014 Michael Lawrence rownames in SummerizedExperiments Apr 6, 2014 Michael Lawrence rownames in SummerizedExperiments Apr 6, 2014 Michael Lawrence suggestion about bioconductor package-- BSgenome.Hsapiens.NCBI.GRCh38 Apr 16, 2014 Michael Lawrence suggestion about bioconductor package-- BSgenome.Hsapiens.NCBI.GRCh38 Apr 16, 2014 Michael Lawrence metadata() in BiocGenerics? Apr 17, 2014 Michael Lawrence suggestion about bioconductorpackage-- BSgenome.Hsapiens.NCBI.GRCh38 Apr 20, 2014 Michael Lawrence Lazy evaluation and S4 methods Apr 23, 2014 Michael Lawrence Lazy evaluation and S4 methods Apr 23, 2014 Michael Lawrence CITATION on the Bioc package landing page? Apr 24, 2014 Michael Lawrence rbind,DataFrame vs rbind.data.frame Apr 30, 2014 Michael Lawrence r+w permissions in release branches Apr 30, 2014

Michael Stadler

Last active: Apr 22, 2014
3 msgs
Michael Stadler "[[<-" method dispatch and GenomicRanges Apr 9, 2014 Michael Stadler "[[<-" method dispatch and GenomicRanges Apr 9, 2014 Michael Stadler 'memory not mapped' in trimLRpatterns Apr 22, 2014

Mike

Last active: Apr 24, 2014
5 msgs
Mike Dependency on windowing systems in the flowCore package Apr 16, 2014 Mike Dependency on windowing systems in the flowCore package Apr 17, 2014 Mike Dependency on windowing systems in the flowCore package Apr 18, 2014 Mike Dependency on windowing systems in the flowCore package Apr 22, 2014 Mike git svn bridge is broken Apr 24, 2014

Morganella Sandro

Last active: Apr 9, 2014
1 msg
Morganella Sandro Commit Problem Apr 9, 2014

Neumann, Steffen

Last active: Apr 8, 2014
1 msg
Neumann, Steffen git-svn bridge down? Apr 8, 2014

Nicolas Delhomme

Last active: Apr 15, 2014
3 msgs
Nicolas Delhomme biocLite “no packages in repository” error Apr 15, 2014 Nicolas Delhomme Can\'t load new BioC packages Apr 15, 2014 Nicolas Delhomme biocLite “no packages in repository” error Apr 15, 2014

Peter Hickey

Last active: Apr 11, 2014
2 msgs
Peter Hickey Restrictions on findOverlaps parameters with SummarizedExperiment objects Apr 10, 2014 Peter Hickey Restrictions on findOverlaps parameters with SummarizedExperiment objects Apr 11, 2014

Ryan

Last active: Apr 30, 2014
5 msgs
Ryan Subsetting Lists by Lists Apr 1, 2014 Ryan Missing seqinfo method for BamFileList? Apr 25, 2014 Ryan Missing seqinfo method for BamFileList? Apr 26, 2014 Ryan Additional summarizeOverlaps counting modes for ChIP-Seq Apr 30, 2014 Ryan Additional summarizeOverlaps counting modes for ChIP-Seq Apr 30, 2014

Simon Anders

Last active: Apr 6, 2014
4 msgs
Simon Anders rownames in SummerizedExperiments Apr 5, 2014 Simon Anders rownames in SummerizedExperiments Apr 5, 2014 Simon Anders rownames in SummerizedExperiments Apr 6, 2014 Simon Anders rownames in SummerizedExperiments Apr 6, 2014

Steve Lianoglou

Last active: Apr 24, 2014
2 msgs
Steve Lianoglou BiocUpgrades updates to devel instead of stable Apr 17, 2014 Steve Lianoglou r+w permissions in release branches Apr 24, 2014

Taku Tokuyasu

Last active: Apr 17, 2014
1 msg
Taku Tokuyasu Apparent error in illuminaHumanv4.db Apr 17, 2014

Tengfei Yin

Last active: Apr 24, 2014
5 msgs
Tengfei Yin seqlevelsStyle<- doesn't work for GRanges object Apr 10, 2014 Tengfei Yin seqlevelsStyle<- doesn't work for GRanges object Apr 10, 2014 Tengfei Yin seqlevelsStyle<- doesn't work for GRanges object Apr 11, 2014 Tengfei Yin IRanges:::safeExplode Apr 23, 2014 Tengfei Yin IRanges:::safeExplode Apr 24, 2014

Tim Triche, Jr.

Last active: Apr 20, 2014
4 msgs
Tim Triche, Jr. Subsetting Lists by Lists Apr 1, 2014 Tim Triche, Jr. Subsetting Lists by Lists Apr 1, 2014 Tim Triche, Jr. suggestion about bioconductorpackage-- BSgenome.Hsapiens.NCBI.GRCh38 Apr 20, 2014 Tim Triche, Jr. suggestion about bioconductorpackage-- BSgenome.Hsapiens.NCBI.GRCh38 Apr 20, 2014

Ulrich Bodenhofer

Last active: Apr 3, 2014
1 msg
Ulrich Bodenhofer Conflicting definitions for function redefined as S4 generics Apr 3, 2014

Valerie Obenchain

Last active: Apr 30, 2014
5 msgs
Valerie Obenchain Bioconductor newsletter: April 2014 Apr 1, 2014 Valerie Obenchain Bioconductor newsletter: April 2014 Apr 1, 2014 Valerie Obenchain restrictToSNV for VCF Apr 9, 2014 Valerie Obenchain Bug in as.data.frame method for RangedData? Apr 28, 2014 Valerie Obenchain Additional summarizeOverlaps counting modes for ChIP-Seq Apr 30, 2014

Vincent Carey

Last active: Apr 24, 2014
4 msgs
Vincent Carey "[[<-" method dispatch and GenomicRanges Apr 9, 2014 Vincent Carey metadata() in BiocGenerics? Apr 10, 2014 Vincent Carey metadata() in BiocGenerics? Apr 17, 2014 Vincent Carey CITATION on the Bioc package landing page? Apr 24, 2014

Wolfgang Huber

Last active: Apr 24, 2014
4 msgs
Wolfgang Huber r+w permissions in release branches Apr 22, 2014 Wolfgang Huber r+w permissions in release branches Apr 24, 2014 Wolfgang Huber r+w permissions in release branches Apr 24, 2014 Wolfgang Huber CITATION on the Bioc package landing page? Apr 24, 2014

Yuan Luo

Last active: Apr 3, 2014
5 msgs
Yuan Luo A question on IRanges package Apr 3, 2014 Yuan Luo A question on IRanges package Apr 3, 2014 Yuan Luo A question on IRanges package Apr 3, 2014 Yuan Luo A question on IRanges package Apr 3, 2014 Yuan Luo A question on IRanges package Apr 3, 2014

ushi

Last active: Apr 16, 2014
1 msg
ushi Packaging a medium/large project Apr 16, 2014