Bioc-devel - March 2014 - Thread View

[Bioc-devel] svn repository for data experiment packages now having branches too

2 msgs Mar 31

Andrzej Oleś svn repository for data experiment packages now having branches too Mar 31, 2014

Hervé Pagès svn repository for data experiment packages now having branches too Mar 31, 2014

[Bioc-devel] rtracklayer: Export to bigwig with unused seqlevels

3 msgs Mar 31

Julian Gehring rtracklayer: Export to bigwig with unused seqlevels Mar 28, 2014

Michael Lawrence rtracklayer: Export to bigwig with unused seqlevels Mar 28, 2014

Julian Gehring rtracklayer: Export to bigwig with unused seqlevels Mar 31, 2014

[Bioc-devel] Viper package is now publicly available

1 msg Mar 30

Mariano Alvarez Viper package is now publicly available Mar 30, 2014

[Bioc-devel] Overflow in as(rlelist, "IntegerList"

5 msgs Mar 29

Gabriel Becker Overflow in as(rlelist, "IntegerList" Mar 29, 2014

Michael Lawrence Overflow in as(rlelist, "IntegerList" Mar 29, 2014

Gabriel Becker Overflow in as(rlelist, "IntegerList" Mar 29, 2014

Hervé Pagès Overflow in as(rlelist, "IntegerList" Mar 29, 2014

Michael Lawrence Overflow in as(rlelist, "IntegerList" Mar 29, 2014

[Bioc-devel] GenomicAlignments: using asMates=TRUE and yieldSize with paired-end BAM files

8 msgs Mar 28

Valerie Obenchain GenomicAlignments: using asMates=TRUE and yieldSize with paired-end BAM files Mar 19, 2014

Michael Love GenomicAlignments: using asMates=TRUE and yieldSize with paired-end BAM files Mar 19, 2014

Valerie Obenchain GenomicAlignments: using asMates=TRUE and yieldSize with paired-end BAM files Mar 19, 2014

Michael Love GenomicAlignments: using asMates=TRUE and yieldSize with paired-end BAM files Mar 21, 2014

Valerie Obenchain GenomicAlignments: using asMates=TRUE and yieldSize with paired-end BAM files Mar 27, 2014

Hervé Pagès GenomicAlignments: using asMates=TRUE and yieldSize with paired-end BAM files Mar 27, 2014

Valerie Obenchain GenomicAlignments: using asMates=TRUE and yieldSize with paired-end BAM files Mar 28, 2014

[Bioc-devel] flank function with start argument a named vector

2 msgs Mar 28

Leonard Goldstein flank function with start argument a named vector Mar 28, 2014

Michael Lawrence flank function with start argument a named vector Mar 28, 2014

[Bioc-devel] Git-svn bridge

1 msg Mar 27

Diana LOW (IMCB) Git-svn bridge Mar 27, 2014

[Bioc-devel] Conflicting definitions for function redefined as S4 generics

7 msgs Mar 27

Ulrich Bodenhofer Conflicting definitions for function redefined as S4 generics Mar 26, 2014

Michael Lawrence Conflicting definitions for function redefined as S4 generics Mar 26, 2014

Gabriel Becker Conflicting definitions for function redefined as S4 generics Mar 26, 2014

Michael Lawrence Conflicting definitions for function redefined as S4 generics Mar 26, 2014

Hervé Pagès Conflicting definitions for function redefined as S4 generics Mar 26, 2014

Ulrich Bodenhofer Conflicting definitions for function redefined as S4 generics Mar 27, 2014

Hervé Pagès Conflicting definitions for function redefined as S4 generics Mar 27, 2014

[Bioc-devel] Apparent error in illuminaHumanv4.db

2 msgs Mar 27

Taku Tokuyasu Apparent error in illuminaHumanv4.db Mar 27, 2014

James W. MacDonald Apparent error in illuminaHumanv4.db Mar 27, 2014

[Bioc-devel] Roar - detecting 3'UTR shortening with standard RNAseq data

1 msg Mar 27

Elena Grassi Roar - detecting 3'UTR shortening with standard RNAseq data Mar 27, 2014

[Bioc-devel] To Bioc Team: OneChannelGUI error

3 msgs Mar 26

rcaloger To Bioc Team: OneChannelGUI error Mar 26, 2014

Dan Tenenbaum To Bioc Team: OneChannelGUI error Mar 26, 2014

rcaloger To Bioc Team: OneChannelGUI error Mar 26, 2014

[Bioc-devel] Bug in les:::cdfDuplicates

3 msgs Mar 25

Ryan Bug in les:::cdfDuplicates Mar 24, 2014

Julian Gehring Bug in les:::cdfDuplicates Mar 25, 2014

Ryan Bug in les:::cdfDuplicates Mar 25, 2014

[Bioc-devel] SummarizedExperiment

4 msgs Mar 25

Peter Haverty SummarizedExperiment Mar 25, 2014

Tim Triche, Jr. SummarizedExperiment Mar 25, 2014

Peter Haverty SummarizedExperiment Mar 25, 2014

Michael Lawrence SummarizedExperiment Mar 25, 2014

[Bioc-devel] file registry - feedback

18 msgs Mar 25

Valerie Obenchain file registry - feedback Mar 10, 2014

Hervé Pagès file registry - feedback Mar 10, 2014

Michael Lawrence file registry - feedback Mar 11, 2014

Gabriel Becker file registry - feedback Mar 11, 2014

Vincent Carey file registry - feedback Mar 11, 2014

Michael Lawrence file registry - feedback Mar 11, 2014

Valerie Obenchain file registry - feedback Mar 11, 2014

Hector Corrada Bravo file registry - feedback Mar 11, 2014

Valerie Obenchain file registry - feedback Mar 11, 2014

Hervé Pagès file registry - feedback Mar 11, 2014

Valerie Obenchain file registry - feedback Mar 11, 2014

Michael Lawrence file registry - feedback Mar 11, 2014

Hervé Pagès file registry - feedback Mar 11, 2014

Michael Lawrence file registry - feedback Mar 12, 2014

Valerie Obenchain file registry - feedback Mar 25, 2014

[Bioc-devel] Cytogenetic bands

1 msg Mar 25

Valerie Obenchain Cytogenetic bands Mar 25, 2014

[Bioc-devel] SummarizedExperiment

3 msgs Mar 24

Martin Morgan SummarizedExperiment Mar 24, 2014

Vincent Carey SummarizedExperiment Mar 24, 2014

Kasper Daniel Hansen SummarizedExperiment Mar 24, 2014

[Bioc-devel] parsing embedded FASTA data

1 msg Mar 24

Hervé Pagès parsing embedded FASTA data Mar 24, 2014

[Bioc-devel] Bioconductor git-svn bridge is available

1 msg Mar 24

Laurent Gatto Bioconductor git-svn bridge is available Mar 24, 2014

[Bioc-devel] Warning: loading Rplot failed

3 msgs Mar 23

rcaloger Warning: loading Rplot failed Mar 22, 2014

Dan Tenenbaum Warning: loading Rplot failed Mar 22, 2014

rcaloger Warning: loading Rplot failed Mar 23, 2014

[Bioc-devel] Cytogenetic bands

1 msg Mar 22

Ilari Scheinin Cytogenetic bands Mar 22, 2014

[Bioc-devel] report a minor bug in GenomicRanges

4 msgs Mar 21

Ou, Jianhong report a minor bug in GenomicRanges Mar 21, 2014

Hervé Pagès report a minor bug in GenomicRanges Mar 21, 2014

Ou, Jianhong report a minor bug in GenomicRanges Mar 21, 2014

Hervé Pagès report a minor bug in GenomicRanges Mar 21, 2014

[Bioc-devel] restrictToSNV for VCF

16 msgs Mar 21

Valerie Obenchain restrictToSNV for VCF Mar 18, 2014

Julian Gehring restrictToSNV for VCF Mar 18, 2014

Stephanie M. Gogarten restrictToSNV for VCF Mar 19, 2014

Michael Lawrence restrictToSNV for VCF Mar 19, 2014

Vincent Carey restrictToSNV for VCF Mar 19, 2014

Michael Lawrence restrictToSNV for VCF Mar 19, 2014

Valerie Obenchain restrictToSNV for VCF Mar 19, 2014

Sean Davis restrictToSNV for VCF Mar 19, 2014

Michael Lawrence restrictToSNV for VCF Mar 19, 2014

Hervé Pagès restrictToSNV for VCF Mar 20, 2014

Martin Morgan restrictToSNV for VCF Mar 21, 2014

Michael Lawrence restrictToSNV for VCF Mar 21, 2014

Hervé Pagès restrictToSNV for VCF Mar 21, 2014

Michael Lawrence restrictToSNV for VCF Mar 21, 2014

[Bioc-devel] SummarizedExperiment

1 msg Mar 20

Kasper Daniel Hansen SummarizedExperiment Mar 20, 2014

[Bioc-devel] GenomicAlignments: using asMates=TRUE and yieldSize with paired-end BAM files

1 msg Mar 19

Valerie Obenchain GenomicAlignments: using asMates=TRUE and yieldSize with paired-end BAM files Mar 19, 2014

[Bioc-devel] GenomicAlignments: using asMates=TRUE and yieldSize with paired-end BAM files

1 msg Mar 19

Michael Love GenomicAlignments: using asMates=TRUE and yieldSize with paired-end BAM files Mar 19, 2014

[Bioc-devel] parsing embedded FASTA data

5 msgs Mar 18

Hervé Pagès parsing embedded FASTA data Mar 17, 2014

Michael Lawrence parsing embedded FASTA data Mar 17, 2014

Gabriel Becker parsing embedded FASTA data Mar 18, 2014

Michael Lawrence parsing embedded FASTA data Mar 18, 2014

Hervé Pagès parsing embedded FASTA data Mar 18, 2014

[Bioc-devel] Problem with rtracklayer package

1 msg Mar 18

Michael Lawrence Problem with rtracklayer package Mar 18, 2014

[Bioc-devel] parsing embedded FASTA data

1 msg Mar 17

Michael Lawrence parsing embedded FASTA data Mar 17, 2014

[Bioc-devel] concat problem with CharacterList in mcols of GRanges

5 msgs Mar 17

Vincent Carey concat problem with CharacterList in mcols of GRanges Mar 16, 2014

Valerie Obenchain concat problem with CharacterList in mcols of GRanges Mar 17, 2014

Hervé Pagès concat problem with CharacterList in mcols of GRanges Mar 17, 2014

Valerie Obenchain concat problem with CharacterList in mcols of GRanges Mar 17, 2014

[Bioc-devel] The importance of bumping (incrementing) package version numbers

1 msg Mar 17

Dan Tenenbaum The importance of bumping (incrementing) package version numbers Mar 17, 2014

[Bioc-devel] Unreproducible build check warning

4 msgs Mar 17

Antti Honkela Unreproducible build check warning Mar 17, 2014

Valerie Obenchain Unreproducible build check warning Mar 17, 2014

Hervé Pagès Unreproducible build check warning Mar 17, 2014

Antti Honkela Unreproducible build check warning Mar 17, 2014

[Bioc-devel] rJava .jpackage("RDAVIDWebService") segfaults in restored R session

1 msg Mar 16

Cook, Malcolm rJava .jpackage("RDAVIDWebService") segfaults in restored R session Mar 16, 2014

[Bioc-devel] fatal error when installing BioC devel on R devel

6 msgs Mar 15

Martin Rijlaarsdam fatal error when installing BioC devel on R devel Mar 13, 2014

Dan Tenenbaum fatal error when installing BioC devel on R devel Mar 13, 2014

Martin Morgan fatal error when installing BioC devel on R devel Mar 13, 2014

Martin Rijlaarsdam fatal error when installing BioC devel on R devel Mar 14, 2014

Dan Tenenbaum fatal error when installing BioC devel on R devel Mar 14, 2014

Dan Tenenbaum fatal error when installing BioC devel on R devel Mar 15, 2014

[Bioc-devel] package submission deadline is next week - Thursday March 20

1 msg Mar 14

Dan Tenenbaum package submission deadline is next week - Thursday March 20 Mar 14, 2014

[Bioc-devel] 'droplevels' argument in `[` method for SummarizedExperiment?

4 msgs Mar 12

Martin Morgan 'droplevels' argument in `[` method for SummarizedExperiment? Mar 12, 2014

Michael Lawrence 'droplevels' argument in `[` method for SummarizedExperiment? Mar 12, 2014

Steve Lianoglou 'droplevels' argument in `[` method for SummarizedExperiment? Mar 12, 2014

Michael Love 'droplevels' argument in `[` method for SummarizedExperiment? Mar 12, 2014

[Bioc-devel] 'droplevels' argument in `[` method for SummarizedExperiment?

2 msgs Mar 12

Wolfgang Huber 'droplevels' argument in `[` method for SummarizedExperiment? Mar 12, 2014

Ryan 'droplevels' argument in `[` method for SummarizedExperiment? Mar 12, 2014

[Bioc-devel] AnnotationDbi and select function

6 msgs Mar 12

Servant Nicolas AnnotationDbi and select function Mar 12, 2014

James W. MacDonald AnnotationDbi and select function Mar 12, 2014

Marc Carlson AnnotationDbi and select function Mar 12, 2014

Servant Nicolas RE : AnnotationDbi and select function Mar 12, 2014

Marc Carlson RE : AnnotationDbi and select function Mar 12, 2014

[Bioc-devel] BiocStyle and fonts

10 msgs Mar 12

Laurent Gatto BiocStyle and fonts Mar 11, 2014

Martin Morgan BiocStyle and fonts Mar 11, 2014

Laurent Gatto BiocStyle and fonts Mar 11, 2014

Andrzej Oleś BiocStyle and fonts Mar 12, 2014

Laurent Gatto BiocStyle and fonts Mar 12, 2014

Kasper Daniel Hansen BiocStyle and fonts Mar 12, 2014

Andrzej Oleś BiocStyle and fonts Mar 12, 2014

Laurent Gatto BiocStyle and fonts Mar 12, 2014

Martin Morgan BiocStyle and fonts Mar 12, 2014

Andrzej Oleś BiocStyle and fonts Mar 12, 2014

[Bioc-devel] readGAlignmentPairs function broken?

2 msgs Mar 11

Hervé Pagès readGAlignmentPairs function broken? Mar 7, 2014

Leonard Goldstein readGAlignmentPairs function broken? Mar 11, 2014

[Bioc-devel] New biocViews for devel branch.

1 msg Mar 10

Arora, Sonali New biocViews for devel branch. Mar 10, 2014

[Bioc-devel] Conference Announcement - CAMDA 2014

1 msg Mar 10

Djork-Arné Clevert Conference Announcement - CAMDA 2014 Mar 10, 2014

[Bioc-devel] deprecated extractTranscriptsFromGenome

2 msgs Mar 10

rcaloger deprecated extractTranscriptsFromGenome Mar 10, 2014

James W. MacDonald deprecated extractTranscriptsFromGenome Mar 10, 2014

Bioc-devel March 2014