Skip to content

Bioc-devel December 2013

|
[Bioc-devel] GSVA and LumiBatch objects
1 msg
Markus Riester GSVA and LumiBatch objects Dec 30, 2013
[Bioc-devel] request: high-level seqlevel utilities
15 msgs
Michael Lawrence request: high-level seqlevel utilities Dec 12, 2013
Michael Lawrence request: high-level seqlevel utilities Dec 16, 2013
Julian Gehring request: high-level seqlevel utilities Dec 16, 2013
Michael Lawrence request: high-level seqlevel utilities Dec 16, 2013
Arora, Sonali request: high-level seqlevel utilities Dec 16, 2013
Michael Lawrence request: high-level seqlevel utilities Dec 16, 2013
Arora, Sonali request: high-level seqlevel utilities Dec 24, 2013
Michael Lawrence request: high-level seqlevel utilities Dec 25, 2013
Arora, Sonali request: high-level seqlevel utilities Dec 27, 2013
Michael Lawrence request: high-level seqlevel utilities Dec 27, 2013
Arora, Sonali request: high-level seqlevel utilities Dec 27, 2013
Tim Triche, Jr. request: high-level seqlevel utilities Dec 27, 2013
Valerie Obenchain request: high-level seqlevel utilities Dec 27, 2013
Michael Lawrence request: high-level seqlevel utilities Dec 27, 2013
Julian Gehring request: high-level seqlevel utilities Dec 30, 2013
[Bioc-devel] BigWigViews
2 msgs
Valerie Obenchain BigWigViews Dec 24, 2013
Michael Love BigWigViews Dec 24, 2013
[Bioc-devel] Consistency between miRNATarget and MiRaGE
3 msgs
Y-h. Taguchi Consistency between miRNATarget and MiRaGE Dec 10, 2013
Hervé Pagès Consistency between miRNATarget and MiRaGE Dec 13, 2013
Hervé Pagès Consistency between miRNATarget and MiRaGE Dec 21, 2013
[Bioc-devel] Job opening: Research Scientist in Biostatistics (Seattle, WA)
1 msg
Stephanie M. Gogarten Job opening: Research Scientist in Biostatistics (Seattle, WA) Dec 20, 2013
[Bioc-devel] how to use footnote in BiocStyle
3 msgs
Ou, Jianhong how to use footnote in BiocStyle Dec 19, 2013
Martin Morgan how to use footnote in BiocStyle Dec 19, 2013
Ou, Jianhong how to use footnote in BiocStyle Dec 20, 2013
[Bioc-devel] very slow to use intronsByTranscript in GenomicFeatures
7 msgs
Ou, Jianhong very slow to use intronsByTranscript in GenomicFeatures Dec 20, 2013
James W. MacDonald very slow to use intronsByTranscript in GenomicFeatures Dec 20, 2013
Hervé Pagès very slow to use intronsByTranscript in GenomicFeatures Dec 20, 2013
Ou, Jianhong very slow to use intronsByTranscript in GenomicFeatures Dec 20, 2013
Robert Castelo very slow to use intronsByTranscript in GenomicFeatures Dec 20, 2013
Hervé Pagès very slow to use intronsByTranscript in GenomicFeatures Dec 20, 2013
Ou, Jianhong very slow to use intronsByTranscript in GenomicFeatures Dec 20, 2013
[Bioc-devel] readGAlignmentPairs function broken?
6 msgs
Leonard Goldstein readGAlignmentPairs function broken? Dec 18, 2013
Leonard Goldstein readGAlignmentPairs function broken? Dec 19, 2013
Hervé Pagès readGAlignmentPairs function broken? Dec 19, 2013
Hervé Pagès readGAlignmentPairs function broken? Dec 19, 2013
Leonard Goldstein readGAlignmentPairs function broken? Dec 19, 2013
Hervé Pagès readGAlignmentPairs function broken? Dec 20, 2013
[Bioc-devel] simple question about floor
3 msgs
Ou, Jianhong simple question about floor Dec 19, 2013
Steven McKinney simple question about floor Dec 19, 2013
Ou, Jianhong simple question about floor Dec 20, 2013
[Bioc-devel] alphabetFrequency on AAString
1 msg
Hervé Pagès alphabetFrequency on AAString Dec 20, 2013
[Bioc-devel] Bulky installation and loading triggered by function import
3 msgs
Luo Weijun Bulky installation and loading triggered by function import Dec 19, 2013
Martin Morgan Bulky installation and loading triggered by function import Dec 19, 2013
Luo Weijun Bulky installation and loading triggered by function import Dec 19, 2013
[Bioc-devel] codetoolsBioC does not suggest methods from packages not defining generic
5 msgs
Michael Lawrence codetoolsBioC does not suggest methods from packages not defining generic Dec 19, 2013
Michael Lawrence codetoolsBioC does not suggest methods from packages not defining generic Dec 19, 2013
Martin Morgan codetoolsBioC does not suggest methods from packages not defining generic Dec 19, 2013
Michael Lawrence codetoolsBioC does not suggest methods from packages not defining generic Dec 19, 2013
Kasper Daniel Hansen codetoolsBioC does not suggest methods from packages not defining generic Dec 19, 2013
[Bioc-devel] sequencing workflow
2 msgs
Michael Lawrence sequencing workflow Dec 17, 2013
Dan Tenenbaum sequencing workflow Dec 17, 2013
[Bioc-devel] ordering GenomicRanges without regard for strand
5 msgs
Michael Lawrence ordering GenomicRanges without regard for strand Dec 12, 2013
Tim Triche, Jr. ordering GenomicRanges without regard for strand Dec 12, 2013
Hervé Pagès ordering GenomicRanges without regard for strand Dec 12, 2013
Kasper Daniel Hansen ordering GenomicRanges without regard for strand Dec 12, 2013
Hervé Pagès ordering GenomicRanges without regard for strand Dec 16, 2013
[Bioc-devel] edgeR crashes when xlsxjars is loaded
2 msgs
Ryan edgeR crashes when xlsxjars is loaded Dec 16, 2013
Martin Morgan edgeR crashes when xlsxjars is loaded Dec 16, 2013
[Bioc-devel] edgeR crashes when xlsxjars is loaded
1 msg
Ryan edgeR crashes when xlsxjars is loaded Dec 16, 2013
[Bioc-devel] edgeR crashes when xlsxjars is loaded
7 msgs
Ryan edgeR crashes when xlsxjars is loaded Dec 16, 2013
Steve Lianoglou edgeR crashes when xlsxjars is loaded Dec 16, 2013
Dan Tenenbaum edgeR crashes when xlsxjars is loaded Dec 16, 2013
Martin Morgan edgeR crashes when xlsxjars is loaded Dec 16, 2013
Ryan edgeR crashes when xlsxjars is loaded Dec 16, 2013
Steve Lianoglou edgeR crashes when xlsxjars is loaded Dec 16, 2013
Ryan edgeR crashes when xlsxjars is loaded Dec 16, 2013
[Bioc-devel] New Seattle Bioconductor group members
1 msg
Martin Morgan New Seattle Bioconductor group members Dec 16, 2013
[Bioc-devel] equivalent of seqselect,vector,Rle
6 msgs
Michael Lawrence equivalent of seqselect,vector,Rle Dec 13, 2013
Hervé Pagès equivalent of seqselect,vector,Rle Dec 13, 2013
Michael Lawrence equivalent of seqselect,vector,Rle Dec 13, 2013
Hervé Pagès equivalent of seqselect,vector,Rle Dec 13, 2013
Michael Lawrence equivalent of seqselect,vector,Rle Dec 13, 2013
Hervé Pagès equivalent of seqselect,vector,Rle Dec 13, 2013
[Bioc-devel] error when install ŒRsamtools¹, ŒGenomicAlignments¹ and Œrtracklayer¹
3 msgs
Ou, Jianhong error when install ŒRsamtools¹, ŒGenomicAlignments¹ and Œrtracklayer¹ Dec 13, 2013
Hervé Pagès error when install ŒRsamtools¹, ŒGenomicAlignments¹ and Œrtracklayer¹ Dec 13, 2013
Ou, Jianhong error when install ŒRsamtools¹, ŒGenomicAlignments¹ and Œrtracklayer¹ Dec 13, 2013
[Bioc-devel] VariantAnnotation: Convertion from VCF to VRanges for CG example VCF
4 msgs
Julian Gehring VariantAnnotation: Convertion from VCF to VRanges for CG example VCF Dec 7, 2013
Valerie Obenchain VariantAnnotation: Convertion from VCF to VRanges for CG example VCF Dec 9, 2013
Valerie Obenchain VariantAnnotation: Convertion from VCF to VRanges for CG example VCF Dec 12, 2013
Julian Gehring VariantAnnotation: Convertion from VCF to VRanges for CG example VCF Dec 12, 2013
[Bioc-devel] forgeBSgenomeDataPkg and gzipped files
2 msgs
Hahne, Florian forgeBSgenomeDataPkg and gzipped files Dec 11, 2013
Hervé Pagès forgeBSgenomeDataPkg and gzipped files Dec 11, 2013
[Bioc-devel] Conflict between BiocStyle and the verbatim package
4 msgs
Nicolas Delhomme Conflict between BiocStyle and the verbatim package Dec 3, 2013
Martin Morgan Conflict between BiocStyle and the verbatim package Dec 3, 2013
Martin Morgan Conflict between BiocStyle and the verbatim package Dec 11, 2013
Nicolas Delhomme Conflict between BiocStyle and the verbatim package Dec 11, 2013
[Bioc-devel] Errors in recent updates of MiRaGE development release
2 msgs
Y-h. Taguchi Errors in recent updates of MiRaGE development release Dec 9, 2013
Dan Tenenbaum Errors in recent updates of MiRaGE development release Dec 9, 2013
[Bioc-devel] Fwd: Rsamtools BAM > SAM?
1 msg
Taku Tokuyasu Rsamtools BAM > SAM? Dec 9, 2013
[Bioc-devel] asVCF error coming from normalizeSingleBracketSubscript
1 msg
Stephanie M. Gogarten asVCF error coming from normalizeSingleBracketSubscript Dec 9, 2013
[Bioc-devel] new GenomicAlignments package
1 msg
Hervé Pagès new GenomicAlignments package Dec 9, 2013
[Bioc-devel] XVector: abstraction
8 msgs
Michael Lawrence XVector: abstraction Dec 5, 2013
Hervé Pagès XVector: abstraction Dec 8, 2013
Michael Lawrence XVector: abstraction Dec 9, 2013
Hervé Pagès XVector: abstraction Dec 9, 2013
Laurent Gautier XVector: abstraction Dec 9, 2013
Michael Lawrence XVector: abstraction Dec 9, 2013
Kasper Daniel Hansen XVector: abstraction Dec 9, 2013
Hervé Pagès XVector: abstraction Dec 9, 2013
[Bioc-devel] readGAlignmentsList and read groups
2 msgs
Michael Lawrence readGAlignmentsList and read groups Dec 5, 2013
Valerie Obenchain readGAlignmentsList and read groups Dec 5, 2013
[Bioc-devel] Rsamtools BAM > SAM?
2 msgs
Martin Morgan Rsamtools BAM > SAM? Dec 5, 2013
Valerie Obenchain Rsamtools BAM > SAM? Dec 5, 2013
[Bioc-devel] Package archives
3 msgs
jens timmerman Package archives Dec 5, 2013
Kasper Daniel Hansen Package archives Dec 5, 2013
Dan Tenenbaum Package archives Dec 5, 2013
[Bioc-devel] XVector: block-wise compressed rda
1 msg
Michael Lawrence XVector: block-wise compressed rda Dec 5, 2013
[Bioc-devel] GenomicRanges: Storing 'seqlengths' as numeric
7 msgs
Julian Gehring GenomicRanges: Storing 'seqlengths' as numeric Dec 3, 2013
Martin Morgan GenomicRanges: Storing 'seqlengths' as numeric Dec 3, 2013
Hervé Pagès GenomicRanges: Storing 'seqlengths' as numeric Dec 3, 2013
Kasper Daniel Hansen GenomicRanges: Storing 'seqlengths' as numeric Dec 3, 2013
Hervé Pagès GenomicRanges: Storing 'seqlengths' as numeric Dec 3, 2013
Nicolas Delhomme GenomicRanges: Storing 'seqlengths' as numeric Dec 5, 2013
Kasper Daniel Hansen GenomicRanges: Storing 'seqlengths' as numeric Dec 5, 2013
[Bioc-devel] Rsamtools BAM > SAM?
2 msgs
Martin Morgan Rsamtools BAM > SAM? Dec 5, 2013
Michael Lawrence Rsamtools BAM > SAM? Dec 5, 2013
[Bioc-devel] How to update a release package?
3 msgs
Setia Pramana How to update a release package? Dec 4, 2013
James W. MacDonald How to update a release package? Dec 4, 2013
Dan Tenenbaum How to update a release package? Dec 4, 2013
[Bioc-devel] Struggles with correct import .....
5 msgs
Martin Maechler Struggles with correct import ..... Dec 3, 2013
Dan Tenenbaum Struggles with correct import ..... Dec 3, 2013
Kasper Daniel Hansen Struggles with correct import ..... Dec 3, 2013
Martin Maechler Struggles with correct import ..... Dec 4, 2013
Dan Tenenbaum Struggles with correct import ..... Dec 4, 2013
[Bioc-devel] IlluminaID2nuID Incorrectly Uses If Statement
2 msgs
Gang Feng IlluminaID2nuID Incorrectly Uses If Statement Dec 2, 2013
Dario Strbenac IlluminaID2nuID Incorrectly Uses If Statement Dec 2, 2013
[Bioc-devel] feature request: pmax for columns of DataFrame objects
4 msgs
Robert Castelo feature request: pmax for columns of DataFrame objects Dec 2, 2013
Michael Lawrence feature request: pmax for columns of DataFrame objects Dec 2, 2013
Robert Castelo feature request: pmax for columns of DataFrame objects Dec 2, 2013
Michael Lawrence feature request: pmax for columns of DataFrame objects Dec 2, 2013
[Bioc-devel] [VariantAnnotation]
1 msg
Valerie Obenchain [Bioc-devel] [VariantAnnotation] Dec 2, 2013
[Bioc-devel] VariantAnnotation writeVcf problem
1 msg
Valerie Obenchain VariantAnnotation writeVcf problem Dec 2, 2013
[Bioc-devel] IlluminaID2nuID Incorrectly Uses If Statement
1 msg
Dario Strbenac IlluminaID2nuID Incorrectly Uses If Statement Dec 1, 2013