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Bioc-devel June 2015

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[Bioc-devel] rtracklayer bug?
2 msgs
Marc Carlson rtracklayer bug? Jun 30, 2015
Michael Lawrence rtracklayer bug? Jun 30, 2015
[Bioc-devel] SummarizedExperiment initialisation and manipulation question.
3 msgs
Hervé Pagès SummarizedExperiment initialisation and manipulation question. Jun 29, 2015
Hervé Pagès SummarizedExperiment initialisation and manipulation question. Jun 29, 2015
Nicolas Delhomme SummarizedExperiment initialisation and manipulation question. Jun 30, 2015
[Bioc-devel] SNPlocs.Hsapiens.dbSNP142.GRCh37
2 msgs
COMMO Frederic SNPlocs.Hsapiens.dbSNP142.GRCh37 Jun 29, 2015
COMMO Frederic SNPlocs.Hsapiens.dbSNP142.GRCh37 Jun 29, 2015
[Bioc-devel] SummarizedExperiment initialisation and manipulation question.
1 msg
Nicolas Delhomme SummarizedExperiment initialisation and manipulation question. Jun 29, 2015
[Bioc-devel] New package
1 msg
Liu, Yuanhang New package Jun 26, 2015
[Bioc-devel] SSL support in Docker images?
2 msgs
Tim Triche, Jr. SSL support in Docker images? Jun 26, 2015
Dan Tenenbaum SSL support in Docker images? Jun 26, 2015
[Bioc-devel] Challenges with package installation on fresh R
11 msgs
Dan Tenenbaum Challenges with package installation on fresh R Jun 25, 2015
Vladislav Petyuk Challenges with package installation on fresh R Jun 25, 2015
Dan Tenenbaum Challenges with package installation on fresh R Jun 25, 2015
Dan Tenenbaum Challenges with package installation on fresh R Jun 25, 2015
Vladislav Petyuk Challenges with package installation on fresh R Jun 25, 2015
Dan Tenenbaum Challenges with package installation on fresh R Jun 25, 2015
Hervé Pagès Challenges with package installation on fresh R Jun 25, 2015
Dan Tenenbaum Challenges with package installation on fresh R Jun 25, 2015
Vladislav Petyuk Challenges with package installation on fresh R Jun 26, 2015
Vladislav Petyuk Challenges with package installation on fresh R Jun 26, 2015
Vladislav Petyuk Challenges with package installation on fresh R Jun 26, 2015
[Bioc-devel] citation in packages in devel branch
2 msgs
Dan Tenenbaum citation in packages in devel branch Jun 26, 2015
Ramon Diaz-Uriarte citation in packages in devel branch Jun 26, 2015
[Bioc-devel] citation in packages in devel branch
1 msg
Ramon Diaz-Uriarte citation in packages in devel branch Jun 26, 2015
[Bioc-devel] Challenges with package installation on fresh R
1 msg
Vladislav Petyuk Challenges with package installation on fresh R Jun 25, 2015
[Bioc-devel] Announcing newtest coverage shields
2 msgs
Dan Tenenbaum Announcing newtest coverage shields Jun 24, 2015
Henrik Bengtsson Announcing newtest coverage shields Jun 24, 2015
[Bioc-devel] best practice: dependencies of dependencies / no visible global function definition
3 msgs
Ludwig Geistlinger best practice: dependencies of dependencies / no visible global function definition Jun 24, 2015
Michael Lawrence best practice: dependencies of dependencies / no visible global function definition Jun 24, 2015
Martin Morgan best practice: dependencies of dependencies / no visible global function definition Jun 24, 2015
[Bioc-devel] Bioconductor Git/GitHub Mirrors
8 msgs
Dan Tenenbaum Bioconductor Git/GitHub Mirrors Jun 19, 2015
Leonardo Collado Torres Bioconductor Git/GitHub Mirrors Jun 19, 2015
Davide Risso Bioconductor Git/GitHub Mirrors Jun 19, 2015
Dan Tenenbaum Bioconductor Git/GitHub Mirrors Jun 19, 2015
Davide Risso Bioconductor Git/GitHub Mirrors Jun 19, 2015
Yu, Guangchuang Bioconductor Git/GitHub Mirrors Jun 22, 2015
Dan Tenenbaum Bioconductor Git/GitHub Mirrors Jun 22, 2015
Yu, Guangchuang Bioconductor Git/GitHub Mirrors Jun 22, 2015
[Bioc-devel] Bioconductor Git/GitHub Mirrors
2 msgs
Mike Bioconductor Git/GitHub Mirrors Jun 19, 2015
Jim Hester Bioconductor Git/GitHub Mirrors Jun 19, 2015
[Bioc-devel] Bioconductor Git/GitHub Mirrors
17 msgs
Dan Tenenbaum Bioconductor Git/GitHub Mirrors Jun 16, 2015
Robert M. Flight Bioconductor Git/GitHub Mirrors Jun 16, 2015
Ryan Bioconductor Git/GitHub Mirrors Jun 16, 2015
Leonardo Collado Torres Bioconductor Git/GitHub Mirrors Jun 16, 2015
Leonardo Collado Torres Bioconductor Git/GitHub Mirrors Jun 16, 2015
Dan Tenenbaum Bioconductor Git/GitHub Mirrors Jun 16, 2015
Dan Tenenbaum Bioconductor Git/GitHub Mirrors Jun 16, 2015
Dan Tenenbaum Bioconductor Git/GitHub Mirrors Jun 16, 2015
Dan Tenenbaum Bioconductor Git/GitHub Mirrors Jun 16, 2015
Leonardo Collado Torres Bioconductor Git/GitHub Mirrors Jun 16, 2015
Dan Tenenbaum Bioconductor Git/GitHub Mirrors Jun 16, 2015
Michael Lawrence Bioconductor Git/GitHub Mirrors Jun 17, 2015
Robert M. Flight Bioconductor Git/GitHub Mirrors Jun 17, 2015
Jim Hester Bioconductor Git/GitHub Mirrors Jun 17, 2015
Robert M. Flight Bioconductor Git/GitHub Mirrors Jun 19, 2015
Jim Hester Bioconductor Git/GitHub Mirrors Jun 19, 2015
Robert M. Flight Bioconductor Git/GitHub Mirrors Jun 19, 2015
[Bioc-devel] BioCAsia, 8 Sept 2015, Tokyo
1 msg
Matt Ritchie BioCAsia, 8 Sept 2015, Tokyo Jun 19, 2015
[Bioc-devel] RangedSummarizedExperiment
9 msgs
Hervé Pagès RangedSummarizedExperiment Jun 18, 2015
Tim Triche, Jr. RangedSummarizedExperiment Jun 18, 2015
Elena Grassi RangedSummarizedExperiment Jun 18, 2015
Kasper Daniel Hansen RangedSummarizedExperiment Jun 18, 2015
Hervé Pagès RangedSummarizedExperiment Jun 18, 2015
Elena Grassi RangedSummarizedExperiment Jun 18, 2015
Hervé Pagès RangedSummarizedExperiment Jun 18, 2015
Tim Triche, Jr. RangedSummarizedExperiment Jun 18, 2015
Hervé Pagès RangedSummarizedExperiment Jun 18, 2015
[Bioc-devel] Rendering of vignette R code on the website
1 msg
Dan Tenenbaum Rendering of vignette R code on the website Jun 18, 2015
[Bioc-devel] Multiple colData in SummarizedExperiment
8 msgs
Davide Risso Multiple colData in SummarizedExperiment Jun 17, 2015
Martin Morgan Multiple colData in SummarizedExperiment Jun 17, 2015
Ryan Multiple colData in SummarizedExperiment Jun 17, 2015
Kasper Daniel Hansen Multiple colData in SummarizedExperiment Jun 18, 2015
Vincent Carey Multiple colData in SummarizedExperiment Jun 18, 2015
Davide Risso Multiple colData in SummarizedExperiment Jun 18, 2015
Kasper Daniel Hansen Multiple colData in SummarizedExperiment Jun 18, 2015
Davide Risso Multiple colData in SummarizedExperiment Jun 18, 2015
[Bioc-devel] consider running tools::compactPDF() on these files
2 msgs
Dan Tenenbaum consider running tools::compactPDF() on these files Jun 18, 2015
Ramon Diaz-Uriarte consider running tools::compactPDF() on these files Jun 18, 2015
[Bioc-devel] consider running tools::compactPDF() on these files
1 msg
Ramon Diaz-Uriarte consider running tools::compactPDF() on these files Jun 18, 2015
[Bioc-devel] Rendering of vignette R code on the website
1 msg
Wolfgang Huber Rendering of vignette R code on the website Jun 18, 2015
[Bioc-devel] RangedSummarizedExperiment
1 msg
Elena Grassi RangedSummarizedExperiment Jun 18, 2015
[Bioc-devel] making txdb, and propagating metadata from AnnotationHub to GenomicFeatures
3 msgs
Hervé Pagès making txdb, and propagating metadata from AnnotationHub to GenomicFeatures Jun 17, 2015
Arora, Sonali making txdb, and propagating metadata from AnnotationHub to GenomicFeatures Jun 18, 2015
Michael Love making txdb, and propagating metadata from AnnotationHub to GenomicFeatures Jun 18, 2015
[Bioc-devel] Bioconductor Git/GitHub Mirrors
1 msg
Yu, Guangchuang Bioconductor Git/GitHub Mirrors Jun 17, 2015
[Bioc-devel] making txdb, and propagating metadata from AnnotationHub to GenomicFeatures
1 msg
Michael Love making txdb, and propagating metadata from AnnotationHub to GenomicFeatures Jun 17, 2015
[Bioc-devel] Broken pathway in graphite package?
1 msg
Ryan Broken pathway in graphite package? Jun 16, 2015
[Bioc-devel] Broken pathway in graphite package?
1 msg
Ryan Broken pathway in graphite package? Jun 16, 2015
[Bioc-devel] Ayuda
1 msg
Dan Tenenbaum Ayuda Jun 16, 2015
[Bioc-devel] Ayuda
1 msg
Cristobal Fresno Rodríguez Ayuda Jun 16, 2015
[Bioc-devel] chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb?
6 msgs
Tim Triche, Jr. chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Gabriel Becker chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Hervé Pagès chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Hector Corrada Bravo chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Michael Lawrence chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Kasper Daniel Hansen chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 15, 2015
[Bioc-devel] Use and Usability metrics / shields
6 msgs
Jim Hester Use and Usability metrics / shields Jun 4, 2015
Leonardo Collado Torres Use and Usability metrics / shields Jun 11, 2015
Dan Tenenbaum Use and Usability metrics / shields Jun 11, 2015
Leonardo Collado Torres Use and Usability metrics / shields Jun 12, 2015
Dan Tenenbaum Use and Usability metrics / shields Jun 12, 2015
Leonardo Collado Torres Use and Usability metrics / shields Jun 12, 2015
[Bioc-devel] version increments for unchanged packages
4 msgs
Stephanie M. Gogarten version increments for unchanged packages Jun 11, 2015
Gabriel Becker version increments for unchanged packages Jun 11, 2015
Hervé Pagès version increments for unchanged packages Jun 11, 2015
Hervé Pagès version increments for unchanged packages Jun 11, 2015
[Bioc-devel] Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency
9 msgs
Ludwig Geistlinger Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency Jun 3, 2015
Robert M. Flight Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency Jun 3, 2015
Rainer Johannes Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency Jun 8, 2015
Ludwig Geistlinger Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency Jun 9, 2015
Rainer Johannes Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency Jun 9, 2015
Martin Morgan Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency Jun 9, 2015
Ludwig Geistlinger Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency Jun 10, 2015
Rainer Johannes Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency Jun 10, 2015
Rainer Johannes Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency Jun 11, 2015
[Bioc-devel] S4 classes extending GRangesList
2 msgs
Hervé Pagès S4 classes extending GRangesList Jun 11, 2015
Leonard Goldstein S4 classes extending GRangesList Jun 11, 2015
[Bioc-devel] S4 classes extending GRangesList
1 msg
Leonard Goldstein S4 classes extending GRangesList Jun 11, 2015
[Bioc-devel] VRanges-class positive strandness and locateVariants() strandawareness
12 msgs
Robert Castelo VRanges-class positive strandness and locateVariants() strandawareness Jun 10, 2015
Michael Lawrence VRanges-class positive strandness and locateVariants() strandawareness Jun 10, 2015
Robert Castelo VRanges-class positive strandness and locateVariants() strandawareness Jun 10, 2015
Michael Lawrence VRanges-class positive strandness and locateVariants() strandawareness Jun 10, 2015
Robert Castelo VRanges-class positive strandness and locateVariants() strandawareness Jun 11, 2015
Michael Lawrence VRanges-class positive strandness and locateVariants() strandawareness Jun 11, 2015
Robert Castelo VRanges-class positive strandness and locateVariants() strandawareness Jun 11, 2015
Michael Lawrence VRanges-class positive strandness and locateVariants() strandawareness Jun 11, 2015
Robert Castelo VRanges-class positive strandness and locateVariants() strandawareness Jun 11, 2015
Valerie Obenchain VRanges-class positive strandness and locateVariants() strandawareness Jun 11, 2015
Michael Lawrence VRanges-class positive strandness and locateVariants() strandawareness Jun 11, 2015
Valerie Obenchain VRanges-class positive strandness and locateVariants() strandawareness Jun 11, 2015
[Bioc-devel] strandless introns with VariantAnnotation::locateVariants()
4 msgs
Valerie Obenchain strandless introns with VariantAnnotation::locateVariants() Jun 10, 2015
Robert Castelo strandless introns with VariantAnnotation::locateVariants() Jun 11, 2015
Valerie Obenchain strandless introns with VariantAnnotation::locateVariants() Jun 11, 2015
Robert Castelo strandless introns with VariantAnnotation::locateVariants() Jun 11, 2015
[Bioc-devel] Cairo error on Mac OS X Snow Leopard (10.6.8) / x86_64
2 msgs
Dan Tenenbaum Cairo error on Mac OS X Snow Leopard (10.6.8) / x86_64 Jun 10, 2015
Leonardo Collado Torres Cairo error on Mac OS X Snow Leopard (10.6.8) / x86_64 Jun 10, 2015
[Bioc-devel] Cairo error on Mac OS X Snow Leopard (10.6.8) / x86_64
1 msg
Leonardo Collado Torres Cairo error on Mac OS X Snow Leopard (10.6.8) / x86_64 Jun 10, 2015
[Bioc-devel] Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency
3 msgs
Rainer Johannes Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency Jun 10, 2015
Rainer Johannes Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency Jun 10, 2015
Martin Morgan Gene annotation: TxDb vs ENSEMBL/NCBI inconsistency Jun 10, 2015
[Bioc-devel] Changes in AnnotationDbi
10 msgs
James W. MacDonald Changes in AnnotationDbi Jun 4, 2015
Vincent Carey Changes in AnnotationDbi Jun 4, 2015
Marc Carlson Changes in AnnotationDbi Jun 4, 2015
James W. MacDonald Changes in AnnotationDbi Jun 5, 2015
Marc Carlson Changes in AnnotationDbi Jun 8, 2015
James W. MacDonald Changes in AnnotationDbi Jun 8, 2015
Simon Anders Changes in AnnotationDbi Jun 9, 2015
Martin Morgan Changes in AnnotationDbi Jun 9, 2015
James W. MacDonald Changes in AnnotationDbi Jun 9, 2015
Simon Anders Changes in AnnotationDbi Jun 9, 2015
[Bioc-devel] strandless introns with VariantAnnotation::locateVariants()
1 msg
Robert Castelo strandless introns with VariantAnnotation::locateVariants() Jun 9, 2015
[Bioc-devel] BioC 2015 Scholarship Application Deadline June 10
1 msg
Martin Morgan BioC 2015 Scholarship Application Deadline June 10 Jun 9, 2015
[Bioc-devel] GSEABase::getOBOCollection() missing children
3 msgs
Robert Castelo GSEABase::getOBOCollection() missing children Jun 5, 2015
Martin Morgan GSEABase::getOBOCollection() missing children Jun 5, 2015
Robert Castelo GSEABase::getOBOCollection() missing children Jun 8, 2015
[Bioc-devel] chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb?
1 msg
Tim Triche, Jr. chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
[Bioc-devel] chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb?
22 msgs
Tim Triche, Jr. chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 3, 2015
Vincent Carey chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 3, 2015
Tim Triche, Jr. chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 3, 2015
Hervé Pagès chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 4, 2015
Kasper Daniel Hansen chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 4, 2015
Michael Lawrence chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 4, 2015
Tim Triche, Jr. chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 4, 2015
Hervé Pagès chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 4, 2015
Michael Lawrence chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Hervé Pagès chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Gabriel Becker chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Kasper Daniel Hansen chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Gabriel Becker chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Hervé Pagès chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Michael Lawrence chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Gabriel Becker chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Hervé Pagès chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Tim Triche, Jr. chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Gabriel Becker chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Hervé Pagès chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Hervé Pagès chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
Michael Lawrence chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 5, 2015
[Bioc-devel] new error when submitting package 'there is no package called 'codetoolsBioC''
3 msgs
Dan Tenenbaum new error when submitting package 'there is no package called 'codetoolsBioC'' Jun 5, 2015
Jennifer Tom new error when submitting package 'there is no package called 'codetoolsBioC'' Jun 5, 2015
Dan Tenenbaum new error when submitting package 'there is no package called 'codetoolsBioC'' Jun 5, 2015
[Bioc-devel] new error when submitting package 'there is no package called 'codetoolsBioC''
1 msg
Jennifer Tom new error when submitting package 'there is no package called 'codetoolsBioC'' Jun 5, 2015
[Bioc-devel] reproducible with mclapply?
11 msgs
Yu, Guangchuang reproducible with mclapply? Jun 3, 2015
Vincent Carey reproducible with mclapply? Jun 3, 2015
Yu, Guangchuang reproducible with mclapply? Jun 3, 2015
Vincent Carey reproducible with mclapply? Jun 3, 2015
Kasper Daniel Hansen reproducible with mclapply? Jun 3, 2015
Yu, Guangchuang reproducible with mclapply? Jun 3, 2015
Vladislav Petyuk reproducible with mclapply? Jun 3, 2015
Kasper Daniel Hansen reproducible with mclapply? Jun 4, 2015
Vincent Carey reproducible with mclapply? Jun 4, 2015
Kasper Daniel Hansen reproducible with mclapply? Jun 4, 2015
Ramon Diaz-Uriarte reproducible with mclapply? Jun 5, 2015
[Bioc-devel] reproducible with mclapply?
3 msgs
Valerie Obenchain reproducible with mclapply? Jun 4, 2015
Vladislav Petyuk reproducible with mclapply? Jun 4, 2015
Kasper Daniel Hansen reproducible with mclapply? Jun 4, 2015
[Bioc-devel] new biocView ExperimentData ->ReproducibleResearch
1 msg
Arora, Sonali new biocView ExperimentData ->ReproducibleResearch Jun 4, 2015
[Bioc-devel] Wishlist: on demand R CMD check
9 msgs
Kasper Daniel Hansen Wishlist: on demand R CMD check Jun 1, 2015
Vincent Carey Wishlist: on demand R CMD check Jun 2, 2015
Sean Davis Wishlist: on demand R CMD check Jun 2, 2015
Michael Lawrence Wishlist: on demand R CMD check Jun 2, 2015
Laurent Gatto Wishlist: on demand R CMD check Jun 2, 2015
Kasper Daniel Hansen Wishlist: on demand R CMD check Jun 2, 2015
Jim Hester Wishlist: on demand R CMD check Jun 2, 2015
Henrik Bengtsson Wishlist: on demand R CMD check Jun 2, 2015
Neumann, Steffen Wishlist: on demand R CMD check Jun 3, 2015
[Bioc-devel] chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb?
3 msgs
Tim Triche, Jr. chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 3, 2015
Kasper Daniel Hansen chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 3, 2015
Vincent Carey chromosome lengths (seqinfo) for supported BSgenome builds into GenomeInfoDb? Jun 3, 2015
[Bioc-devel] caOmicsV package
1 msg
Zhang, Hongen (NIH/NCI) [E] caOmicsV package Jun 3, 2015
[Bioc-devel] triform - Bioconductor Package up for Adoption
1 msg
Arora, Sonali triform - Bioconductor Package up for Adoption Jun 1, 2015