Bioc-devel - December 2013 - Subject View

BigWigViews

2 msgs · Dec 24 – Dec 24

Valerie Obenchain BigWigViews Dec 24, 2013 Michael Love BigWigViews Dec 24, 2013

Bulky installation and loading triggered by function import

3 msgs · Dec 19 – Dec 19

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

Conflict between BiocStyle and the verbatim package

4 msgs · Dec 3 – Dec 11

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

Consistency between miRNATarget and MiRaGE

3 msgs · Dec 10 – Dec 21

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

Errors in recent updates of MiRaGE development release

2 msgs · Dec 9 – Dec 9

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

GSVA and LumiBatch objects

1 msg · Dec 30

Markus Riester GSVA and LumiBatch objects Dec 30, 2013

GenomicRanges: Storing 'seqlengths' as numeric

7 msgs · Dec 3 – Dec 5

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

How to update a release package?

3 msgs · Dec 4 – Dec 4

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

IlluminaID2nuID Incorrectly Uses If Statement

3 msgs · Dec 1 – Dec 2

Dario Strbenac IlluminaID2nuID Incorrectly Uses If Statement Dec 1, 2013 Gang Feng IlluminaID2nuID Incorrectly Uses If Statement Dec 2, 2013 Dario Strbenac IlluminaID2nuID Incorrectly Uses If Statement Dec 2, 2013

Job opening: Research Scientist in Biostatistics (Seattle, WA)

1 msg · Dec 20

Stephanie M. Gogarten Job opening: Research Scientist in Biostatistics (Seattle, WA) Dec 20, 2013

New Seattle Bioconductor group members

1 msg · Dec 16

Martin Morgan New Seattle Bioconductor group members Dec 16, 2013

Package archives

3 msgs · Dec 5 – Dec 5

jens timmerman Package archives Dec 5, 2013 Kasper Daniel Hansen Package archives Dec 5, 2013 Dan Tenenbaum Package archives Dec 5, 2013

Rsamtools BAM > SAM?

5 msgs · Dec 5 – Dec 9

Martin Morgan Rsamtools BAM > SAM? Dec 5, 2013 Michael Lawrence Rsamtools BAM > SAM? Dec 5, 2013 Martin Morgan Rsamtools BAM > SAM? Dec 5, 2013 Valerie Obenchain Rsamtools BAM > SAM? Dec 5, 2013 Taku Tokuyasu Rsamtools BAM > SAM? Dec 9, 2013

Struggles with correct import .....

5 msgs · Dec 3 – Dec 4

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

VariantAnnotation writeVcf problem

1 msg · Dec 2

Valerie Obenchain VariantAnnotation writeVcf problem Dec 2, 2013

VariantAnnotation: Convertion from VCF to VRanges for CG example VCF

4 msgs · Dec 7 – Dec 12

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

XVector: abstraction

8 msgs · Dec 5 – Dec 9

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

XVector: block-wise compressed rda

1 msg · Dec 5

Michael Lawrence XVector: block-wise compressed rda Dec 5, 2013

[Bioc-devel] [VariantAnnotation]

1 msg · Dec 2

Valerie Obenchain [Bioc-devel] [VariantAnnotation] Dec 2, 2013

alphabetFrequency on AAString

1 msg · Dec 20

Hervé Pagès alphabetFrequency on AAString Dec 20, 2013

asVCF error coming from normalizeSingleBracketSubscript

1 msg · Dec 9

Stephanie M. Gogarten asVCF error coming from normalizeSingleBracketSubscript Dec 9, 2013

codetoolsBioC does not suggest methods from packages not defining generic

5 msgs · Dec 19 – Dec 19

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

edgeR crashes when xlsxjars is loaded

10 msgs · Dec 16 – Dec 16

equivalent of seqselect,vector,Rle

6 msgs · Dec 13 – Dec 13

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

error when install ŒRsamtools¹, ŒGenomicAlignments¹ and Œrtracklayer¹

3 msgs · Dec 13 – Dec 13

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

feature request: pmax for columns of DataFrame objects

4 msgs · Dec 2 – Dec 2

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

forgeBSgenomeDataPkg and gzipped files

2 msgs · Dec 11 – Dec 11

Hahne, Florian forgeBSgenomeDataPkg and gzipped files Dec 11, 2013 Hervé Pagès forgeBSgenomeDataPkg and gzipped files Dec 11, 2013

how to use footnote in BiocStyle

3 msgs · Dec 19 – Dec 20

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

new GenomicAlignments package

1 msg · Dec 9

Hervé Pagès new GenomicAlignments package Dec 9, 2013

ordering GenomicRanges without regard for strand

5 msgs · Dec 12 – Dec 16

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

readGAlignmentPairs function broken?

6 msgs · Dec 18 – Dec 20

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

readGAlignmentsList and read groups

2 msgs · Dec 5 – Dec 5

Michael Lawrence readGAlignmentsList and read groups Dec 5, 2013 Valerie Obenchain readGAlignmentsList and read groups Dec 5, 2013

request: high-level seqlevel utilities

15 msgs · Dec 12 – Dec 30

sequencing workflow

2 msgs · Dec 17 – Dec 17

Michael Lawrence sequencing workflow Dec 17, 2013 Dan Tenenbaum sequencing workflow Dec 17, 2013

simple question about floor