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Revision: 95765
Author: s.aibar
Date: 2014-10-20T09:46:34+00:00
Paths:
Modified  /trunk/madman/Rpacks/FGNet/DESCRIPTION
Modified  /trunk/madman/Rpacks/FGNet/man/FGNet-package.Rd
Modified  /trunk/madman/Rpacks/FGNet/man/format_david.Rd
Modified  /trunk/madman/Rpacks/FGNet/man/plotGoAncestors.Rd
Modified  /trunk/madman/Rpacks/FGNet/man/plotKegg.Rd
Modified  /trunk/madman/Rpacks/FGNet/vignettes/FGNet.Rmd
3.1.3 Rename example David file in help
Revision: 95764
Author: fhahne
Date: 2014-10-20T09:11:50+00:00
Paths:
Modified  /trunk/madman/Rpacks/genefilter/DESCRIPTION
Modified  /trunk/madman/Rpacks/genefilter/src/pAUC.c
Modified  /trunk/madman/Rpacks/genefilter/src/rowPAUCs.c
fixing some assignment bugs in the calculation of pAUCs
Revision: 95761
Author: l.huaien
Date: 2014-10-20T02:53:41+00:00
Paths:
Added  /trunk/madman/Rpacks/EDDA/man/BP.Rd
Added  /trunk/madman/Rpacks/EDDA/man/Wu.Rd
setting up git-svn bridge
Revision: 95759
Author: smyth
Date: 2014-10-20T02:08:30+00:00
Paths:
Modified  /trunk/madman/Rpacks/limma/DESCRIPTION
Modified  /trunk/madman/Rpacks/limma/NAMESPACE
Modified  /trunk/madman/Rpacks/limma/R/geneset-romer.R
Modified  /trunk/madman/Rpacks/limma/inst/doc/changelog.txt
Modified  /trunk/madman/Rpacks/limma/man/romer.Rd
20 Oct 2014: limma 3.23.1

- romer() is now an S3 generic function.
Revision: 95758
Author: a.franceschini
Date: 2014-10-19T20:57:46+00:00
Paths:
Added  /trunk/madman/Rpacks/STRINGdb/vignettes/heatmap_enrichment_example.pdf
updated package
Revision: 95756
Author: r.nicolle
Date: 2014-10-19T20:05:41+00:00
Paths:
Modified  /trunk/madman/Rpacks/CoRegNet/DESCRIPTION
Modified  /trunk/madman/Rpacks/CoRegNet/inst/CITATION
1.1.3. correct citations.
Revision: 95755
Author: j.larson
Date: 2014-10-19T19:18:34+00:00
Paths:
Modified  /trunk/madman/Rpacks/npGSEA/DESCRIPTION
Modified  /trunk/madman/Rpacks/npGSEA/NEWS
Modified  /trunk/madman/Rpacks/npGSEA/R/miscDataPrepFunctions.R
Modified  /trunk/madman/Rpacks/npGSEA/R/miscFunctions.R
Modified  /trunk/madman/Rpacks/npGSEA/R/npGSEA.R
Modified  /trunk/madman/Rpacks/npGSEA/R/pValues-methods.R
Modified  /trunk/madman/Rpacks/npGSEA/man/npGSEA.Rd
made several updates based on BMC reviews
Revision: 95752
Author: s.bauer
Date: 2014-10-19T11:27:06+00:00
Paths:
Modified  /trunk/madman/Rpacks/mgsa/DESCRIPTION
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit.

Commit information:

Commit id: 52e060a7da881326efaf4afa1ba53af1f28b6340

    Added URL field linking to the GitHub project page.

Committed by: Sebastian Bauer
Author Name: Sebastian Bauer
Commit date: 2014-10-19 13:27:42 +0200
Author date: 2014-10-19 13:27:42 +0200
Revision: 95749
Author: a.lun
Date: 2014-10-19T00:39:57+00:00
Paths:
Modified  /trunk/madman/Rpacks/csaw/DESCRIPTION
Modified  /trunk/madman/Rpacks/csaw/inst/doc/csawUserGuide.pdf
Fixed some errors, added mention of getBestTest in the UG.
Revision: 95745
Author: mtmorgan
Date: 2014-10-18T20:49:59+00:00
Paths:
Modified  /trunk/madman/Rpacks/biocViews/DESCRIPTION
Modified  /trunk/madman/Rpacks/biocViews/inst/dot/biocViewsVocab.dot
typos in dot
Revision: 95744
Author: m.chae
Date: 2014-10-18T20:39:41+00:00
Paths:
Modified  /trunk/madman/Rpacks/groHMM/DESCRIPTION
Changed version
Revision: 95743
Author: m.chae
Date: 2014-10-18T20:25:32+00:00
Paths:
Added  /trunk/madman/Rpacks/groHMM/inst/CITATION
Added CITATION
Revision: 95742
Author: m.chae
Date: 2014-10-18T20:21:39+00:00
Paths:
Modified  /trunk/madman/Rpacks/groHMM/DESCRIPTION
Changed description
Revision: 95741
Author: l.collado-torres
Date: 2014-10-18T18:40:36+00:00
Paths:
Modified  /trunk/madman/Rpacks/derfinder/tests/testthat/test_data.R
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit.

Commit information:

Commit id: 2a551bd4e3e8be67a0645c91eb820a71ef741115

    Add a test for dropping D bases case

Committed by: lcolladotor
Author Name: lcolladotor
Commit date: 2014-10-18 14:40:33 -0400
Author date: 2014-10-18 14:40:33 -0400
Revision: 95740
Author: l.collado-torres
Date: 2014-10-18T18:28:15+00:00
Paths:
Modified  /trunk/madman/Rpacks/derfinder/DESCRIPTION
Modified  /trunk/madman/Rpacks/derfinder/R/loadCoverage.R
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit.

Commit information:

Commit id: 1bce380ecb48f8140f88f7967e6dfd9cbcdf9728

    v1.1.4 -- Added an advanced argument to control whether to drop bases with CIGAR string equal to 'D' or not. See more at https://stat.ethz.ch/pipermail/bioc-devel/2014-October/006503.html

Committed by: lcolladotor
Author Name: lcolladotor
Commit date: 2014-10-18 14:28:01 -0400
Author date: 2014-10-18 14:28:01 -0400
Revision: 95735
Author: stvjc
Date: 2014-10-18T16:26:22+00:00
Paths:
Modified  /trunk/madman/Rpacks/grasp2db/R/zzz.R
wrong table reference fixed
Revision: 95734
Author: s.xu
Date: 2014-10-18T16:12:44+00:00
Paths:
Modified  /trunk/madman/Rpacks/sapFinder/DESCRIPTION
Adds the CITATION
Revision: 95733
Author: s.xu
Date: 2014-10-18T16:11:12+00:00
Paths:
Added  /trunk/madman/Rpacks/sapFinder/inst/CITATION
Adds the CITATION
Revision: 95731
Author: r.nicolle
Date: 2014-10-18T14:39:21+00:00
Paths:
Modified  /trunk/madman/Rpacks/CoRegNet/inst/CITATION
1.1.2. correct citations.
Revision: 95729
Author: m.lawrence
Date: 2014-10-18T14:01:37+00:00
Paths:
Modified  /trunk/madman/Rpacks/rtracklayer/man/BEDFile-class.Rd
update docs for current extraCols behavior
Revision: 95727
Author: r.nicolle
Date: 2014-10-18T12:56:48+00:00
Paths:
Modified  /trunk/madman/Rpacks/CoRegNet/inst/CITATION
1.1.2. correct citations.
Revision: 95724
Author: x.zheng
Date: 2014-10-18T08:26:03+00:00
Paths:
Modified  /trunk/madman/Rpacks/SeqArray/R/AllUtilities.R
Modified  /trunk/madman/Rpacks/SeqArray/R/SeqVarGDSClass-accessors.R
Modified  /trunk/madman/Rpacks/SeqArray/man/seqVCF.SampID.Rd
Modified  /trunk/madman/Rpacks/SeqArray/man/seqVCF2GDS.Rd
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit.

Commit information:

Commit id: ad51b5a9778dc1e539eea8abd86ff059eb2fa0c3

    Update 1.7.0

Committed by: Xiuwen Zheng
Author Name: Xiuwen Zheng
Commit date: 2014-10-18 01:25:53 -0700
Author date: 2014-10-18 01:25:53 -0700
Revision: 95723
Author: khansen
Date: 2014-10-18T02:17:54+00:00
Paths:
Modified  /trunk/madman/Rpacks/minfi/DESCRIPTION
Modified  /trunk/madman/Rpacks/minfi/R/read.450k.R
Modified  /trunk/madman/Rpacks/minfi/inst/NEWS.Rd
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit.

Commit information:

Commit id: d0a713e376ea055b8754cd575dc5836b285063d4

    added support for base in read.450k.exp when targets is supplied.  Thanks to Brent Pedersen

Committed by: Kasper Daniel Hansen
Author Name: Kasper Daniel Hansen
Commit date: 2014-10-17 22:17:46 -0400
Author date: 2014-10-17 22:17:46 -0400
Revision: 95722
Author: d.tenenbaum
Date: 2014-10-17T22:29:23+00:00
Paths:
Modified  /trunk/madman/Rpacks/BiocCheck/DESCRIPTION
Modified  /trunk/madman/Rpacks/BiocCheck/R/checks.R
Commit made by the Bioconductor Git-SVN bridge.
Consists of 3 commits.

Commit information:

Commit id: b5066e219b7fbf1bec9f1ac4480ec4db2b1eb50c

    bump version

Committed by: Dan Tenenbaum
Author Name: Dan Tenenbaum
Commit date: 2014-10-17 15:29:06 -0700
Author date: 2014-10-17 15:29:06 -0700

Commit id: 5f9c17d334f289f2478091c58bb7fe5bb133f7a4

    Merge branch 'master' of https://github.com/Bioconductor/BiocCheck

Committed by: Dan Tenenbaum
Author Name: Dan Tenenbaum
Commit date: 2014-10-17 15:28:30 -0700
Author date: 2014-10-17 15:28:30 -0700

Commit id: 561be0c5c2513dfa9fbde06e0e0c1aa44942c263

    find more canned comments

Committed by: Dan Tenenbaum
Author Name: Dan Tenenbaum
Commit date: 2014-10-17 15:28:08 -0700
Author date: 2014-10-17 15:28:08 -0700
Revision: 95721
Author: p.hickey
Date: 2014-10-17T22:29:10+00:00
Paths:
Modified  /trunk/madman/Rpacks/GenomicTuples/DESCRIPTION
Modified  /trunk/madman/Rpacks/GenomicTuples/R/AllGenerics.R
Modified  /trunk/madman/Rpacks/GenomicTuples/R/GTuplesList-class.R
Modified  /trunk/madman/Rpacks/GenomicTuples/tests/testthat/test-GTuples-class.R
Modified  /trunk/madman/Rpacks/GenomicTuples/tests/testthat/test-GTuplesList-class.R
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit.

Commit information:

Commit id: 4e503665bc7b8d2e6a88f4ef54a2d79408f4f357

    Minor code tidying

Committed by: Peter Hickey
Author Name: Peter Hickey
Commit date: 2014-10-18 09:28:56 +1100
Author date: 2014-10-18 09:28:56 +1100
Revision: 95720
Author: d.tenenbaum
Date: 2014-10-17T22:16:06+00:00
Paths:
Modified  /trunk/madman/Rpacks/AnnotationHubData/inst/scripts/updateToLatestEnsembl.R
make sure new AHMs are compatible w/BioC 3.1
Revision: 95718
Author: l.zhu
Date: 2014-10-17T21:35:50+00:00
Paths:
Modified  /trunk/madman/Rpacks/CRISPRseek/R/offTargetAnalysis.R
Modified  /trunk/madman/Rpacks/CRISPRseek/man/findgRNAs.Rd
Modified  /trunk/madman/Rpacks/CRISPRseek/man/offTargetAnalysis.Rd
improved documentation
Revision: 95716
Author: m.carlson
Date: 2014-10-17T21:05:25+00:00
Paths:
Modified  /trunk/madman/Rpacks/AnnotationHubData/inst/scripts/updateToLatestEnsembl.R
updates the script with more information about how to connect to the back end DBs
Revision: 95713
Author: l.pantano
Date: 2014-10-17T20:24:59+00:00
Paths:
Modified  /trunk/madman/Rpacks/DEGreport/.travis.yml
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit.

Commit information:

Commit id: 4ae53da4f3fe3d4a8291d80c71b58c05f5a66dbb

    weird error in travis saying devel is already in use

Committed by: Lorena
Author Name: Lorena
Commit date: 2014-10-17 16:24:52 -0400
Author date: 2014-10-17 16:24:52 -0400
Revision: 95711
Author: m.carlson
Date: 2014-10-17T20:17:05+00:00
Paths:
Modified  /trunk/madman/Rpacks/Rsamtools/DESCRIPTION
Modified  /trunk/madman/Rpacks/Rsamtools/man/FaFile-class.Rd
Escapes % character in man page so package can install.
Revision: 95710
Author: hpages
Date: 2014-10-17T20:15:15+00:00
Paths:
Modified  /trunk/madman/Rpacks/BSgenome/DESCRIPTION
Modified  /trunk/madman/Rpacks/BSgenome/NAMESPACE
Added  /trunk/madman/Rpacks/BSgenome/R/ExtraSNPlocs-class.R
add ExtraSNPlocs class (API not ready yet)
Revision: 95709
Author: l.pantano
Date: 2014-10-17T20:07:57+00:00
Paths:
Modified  /trunk/madman/Rpacks/DEGreport/DESCRIPTION
Modified  /trunk/madman/Rpacks/DEGreport/R/methods.R
Modified  /trunk/madman/Rpacks/DEGreport/R/report.R
Modified  /trunk/madman/Rpacks/DEGreport/inst/NEWS
Commit made by the Bioconductor Git-SVN bridge.
Consists of 4 commits.

Commit information:

Commit id: 667dddbd49f2fdaf9845cf19774cfe3656728b38

    some problems only when 1 gene in DEG

Committed by: Lorena
Author Name: Lorena
Commit date: 2014-10-17 16:07:48 -0400
Author date: 2014-10-17 16:07:48 -0400

Commit id: c403c47a14e8e0dc1fb5ab1a5ae18bbd0993ab96

    some problems only when 1 gene in DEG

Committed by: Lorena
Author Name: Lorena
Commit date: 2014-10-17 16:06:06 -0400
Author date: 2014-10-17 16:06:06 -0400

Commit id: 31abb1226c0822c2fc88bc3a92a5440cc6e4d8c7

    some problems only when 1 gene in DEG

Committed by: Lorena
Author Name: Lorena
Commit date: 2014-10-17 16:05:23 -0400
Author date: 2014-10-17 16:05:23 -0400

Commit id: cfeec8883217331a2473312142d91ba780139441

    some problems only when 1 gene in DEG

Committed by: Lorena
Author Name: Lorena
Commit date: 2014-10-17 16:03:49 -0400
Author date: 2014-10-17 16:03:49 -0400
Revision: 95708
Author: s.bauer
Date: 2014-10-17T20:03:51+00:00
Paths:
Modified  /trunk/madman/Rpacks/mgsa/R/MgsaGoSets-class.R
Modified  /trunk/madman/Rpacks/mgsa/R/zzz.R
Added  /trunk/madman/Rpacks/mgsa/tests/testthat/gene_association_head.goa_ref_human.gz
Added  /trunk/madman/Rpacks/mgsa/tests/testthat/test-readGAF.R
Commit made by the Bioconductor Git-SVN bridge.
Consists of 3 commits.

Commit information:

Commit id: 938b1ec9258d616fda3e9283015f6b9d1656c562

    Use the unload hook for unloading the dynamic lib.

    This reduces the NOTE count from 2 to 1.

Committed by: Sebastian Bauer
Author Name: Sebastian Bauer
Commit date: 2014-10-17 22:04:09 +0200
Author date: 2014-10-17 22:04:09 +0200

Commit id: 15a2ca4d959a79574de2120256f4dcede94c668b

    Added too simple test for readGAF.

Committed by: Sebastian Bauer
Author Name: Sebastian Bauer
Commit date: 2014-10-17 22:03:34 +0200
Author date: 2014-10-17 22:03:34 +0200

Commit id: c1133c315f891f712ecd4fac782e1c1e8b3809c2

    Don't use subset. This should address one part of a NOTE.

Committed by: Sebastian Bauer
Author Name: Sebastian Bauer
Commit date: 2014-10-17 21:41:52 +0200
Author date: 2014-10-17 21:41:52 +0200
Revision: 95707
Author: c.panse
Date: 2014-10-17T19:54:19+00:00
Paths:
Modified  /trunk/madman/Rpacks/specL/DESCRIPTION
Modified  /trunk/madman/Rpacks/specL/inst/NEWS
uses modSeq in group_id iff existing
Revision: 95705
Author: m.robinson
Date: 2014-10-17T19:01:37+00:00
Paths:
Modified  /trunk/madman/Rpacks/edgeR/inst/CITATION
Page number e91 needs to be in quotes
Revision: 95703
Author: stvjc
Date: 2014-10-17T18:26:27+00:00
Paths:
Added  /trunk/madman/Rpacks/GGtools/man/eqBox.Rd
man page for cisAssoc output visualizer
Revision: 95702
Author: stvjc
Date: 2014-10-17T18:20:47+00:00
Paths:
Modified  /trunk/madman/Rpacks/GGtools/DESCRIPTION
Modified  /trunk/madman/Rpacks/GGtools/NAMESPACE
Modified  /trunk/madman/Rpacks/GGtools/R/cisa.R
added eqBox for cisAssoc results
Revision: 95700
Author: rscharpf
Date: 2014-10-17T18:07:04+00:00
Paths:
Modified  /trunk/madman/Rpacks/VanillaICE/DESCRIPTION
Modified  /trunk/madman/Rpacks/VanillaICE/NAMESPACE
Modified  /trunk/madman/Rpacks/VanillaICE/R/help.R
Modified  /trunk/madman/Rpacks/VanillaICE/R/methods-ArrayViews.R
Modified  /trunk/madman/Rpacks/VanillaICE/R/methods-SnpArrayExperiment.R
Modified  /trunk/madman/Rpacks/VanillaICE/inst/extdata/FinalReport1664.csv
Modified  /trunk/madman/Rpacks/VanillaICE/inst/extdata/FinalReport1675.csv
Modified  /trunk/madman/Rpacks/VanillaICE/inst/extdata/FinalReport1686.csv
Modified  /trunk/madman/Rpacks/VanillaICE/inst/extdata/FinalReport6841.csv
Modified  /trunk/madman/Rpacks/VanillaICE/inst/extdata/FinalReport6872.csv
Modified  /trunk/madman/Rpacks/VanillaICE/inst/extdata/FinalReport6903.csv
Modified  /trunk/madman/Rpacks/VanillaICE/inst/unitTests/test_ArrayViews.R
Modified  /trunk/madman/Rpacks/VanillaICE/man/ArrayViews-class.Rd
Modified  /trunk/madman/Rpacks/VanillaICE/man/parseSourceFile.Rd
Modified  /trunk/madman/Rpacks/VanillaICE/vignettes/VanillaICE.Rnw
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit.

Commit information:

Commit id: 7c9360262ad7ca549466594916ab577ebda02d92

    Changes to avoid 'embedded null in string' error caused by FinalReport6903.csv

Committed by: Rob Scharpf
Author Name: Rob Scharpf
Commit date: 2014-10-17 14:06:17 -0400
Author date: 2014-10-17 14:06:17 -0400
Revision: 95699
Author: j.ou
Date: 2014-10-17T17:57:43+00:00
Paths:
Modified  /trunk/madman/Rpacks/cleanUpdTSeq/DESCRIPTION
Modified  /trunk/madman/Rpacks/cleanUpdTSeq/NEWS
Modified  /trunk/madman/Rpacks/cleanUpdTSeq/man/predictTestSet.Rd
Modified  /trunk/madman/Rpacks/cleanUpdTSeq/vignettes/cleanUpdTSeq.Rnw
Fix the bugs in documentation of predictTestSet
Revision: 95696
Author: a.franceschini
Date: 2014-10-17T16:58:10+00:00
Paths:
Modified  /trunk/madman/Rpacks/STRINGdb/DESCRIPTION
updated package
Revision: 95695
Author: a.franceschini
Date: 2014-10-17T16:52:59+00:00
Paths:
Modified  /trunk/madman/Rpacks/STRINGdb/DESCRIPTION
Modified  /trunk/madman/Rpacks/STRINGdb/R/r_utils.R
Modified  /trunk/madman/Rpacks/STRINGdb/R/rstring.R
Modified  /trunk/madman/Rpacks/STRINGdb/man/get_enrichment.Rd
Modified  /trunk/madman/Rpacks/STRINGdb/vignettes/STRINGdb.Rnw
updated package
Revision: 95691
Author: k.rue-albrecht
Date: 2014-10-17T15:47:29+00:00
Paths:
Modified  /trunk/madman/Rpacks/GOexpress/DESCRIPTION
Modified  /trunk/madman/Rpacks/GOexpress/NEWS
Modified  /trunk/madman/Rpacks/GOexpress/R/analysis.R
Modified  /trunk/madman/Rpacks/GOexpress/R/post_analysis.R
Modified  /trunk/madman/Rpacks/GOexpress/data/AlvMac_results.RData
Modified  /trunk/madman/Rpacks/GOexpress/man/GOexpress-package.Rd
Modified  /trunk/madman/Rpacks/GOexpress/vignettes/GOexpress-UsersGuide.Rnw
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit.

Commit information:

Commit id: 1844e18c6623e7a1c8aa9d620571c84c3c1d0136

    Release 1.1.1. Bug fix introduced by the biomaRt package update. All references to column 'external_gene_id' were replaced by 'external_gene_name'. Minor corrections to the User Guide and the DESCRIPTION file.

Committed by: Kevin Rue
Author Name: Kevin Rue
Commit date: 2014-10-17 16:50:10 +0100
Author date: 2014-10-17 16:50:10 +0100
Revision: 95687
Author: mtmorgan
Date: 2014-10-17T15:19:09+00:00
Paths:
Modified  /trunk/madman/Rpacks/hypergraph/R/AllClasses.R
no need to require(methods)
Revision: 95686
Author: mtmorgan
Date: 2014-10-17T15:18:50+00:00
Paths:
Modified  /trunk/madman/Rpacks/hypergraph/man/kCores.Rd
Modified  /trunk/madman/Rpacks/hypergraph/man/vCover.Rd
documentation clean-up

- drop empty seealso sections
Revision: 95684
Author: d.tenenbaum
Date: 2014-10-17T14:42:28+00:00
Paths:
Modified  /trunk/madman/Rpacks/Clonality/DESCRIPTION
Modified  /trunk/madman/Rpacks/bioc_3.1.manifest
Adding Clonality back to the release.
Revision: 95682
Author: m.alvarez
Date: 2014-10-17T14:27:18+00:00
Paths:
Modified  /trunk/madman/Rpacks/viper/DESCRIPTION
Modified  /trunk/madman/Rpacks/viper/vignettes/viper.Rnw
Added library(viper) to vignette
Revision: 95681
Author: likun.wang
Date: 2014-10-17T12:19:28+00:00
Paths:
Modified  /trunk/madman/Rpacks/cisPath/DESCRIPTION
Modified  /trunk/madman/Rpacks/cisPath/inst/NEWS
Modified  /trunk/madman/Rpacks/cisPath/inst/extdata/D3/cisPath.css
Modified  /trunk/madman/Rpacks/cisPath/inst/extdata/graphView.html
documentation improvements
Revision: 95679
Author: m.robinson
Date: 2014-10-17T11:40:35+00:00
Paths:
Modified  /trunk/madman/Rpacks/edgeR/DESCRIPTION
Modified  /trunk/madman/Rpacks/edgeR/R/decidetestsDGE.R
Modified  /trunk/madman/Rpacks/edgeR/man/decidetestsDGE.Rd
added lfc (log-fold-change) argument to decideTestsDGE + docs
Revision: 95676
Author: o.krijgsman
Date: 2014-10-17T11:34:33+00:00
Paths:
Modified  /trunk/madman/Rpacks/focalCall/DESCRIPTION
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit.

Commit information:

Commit id: 828785576a6a37649e161c0f29f302b3d6bb93c7

    Deleted erroneous line

Committed by: Oscar Krijgsman
Author Name: Oscar Krijgsman
Commit date: 2014-10-17 13:34:01 +0200
Author date: 2014-10-17 13:34:01 +0200
Revision: 95675
Author: o.krijgsman
Date: 2014-10-17T11:31:25+00:00
Paths:
Modified  /trunk/madman/Rpacks/focalCall/DESCRIPTION
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit.

Commit information:

Commit id: 237224d075a703bcfa2f8c9e20c3cb3741503187

    Added URL of github to the DESCRIPTION file

Committed by: Oscar Krijgsman
Author Name: Oscar Krijgsman
Commit date: 2014-10-17 13:30:46 +0200
Author date: 2014-10-17 13:30:46 +0200
Revision: 95674
Author: o.krijgsman
Date: 2014-10-17T11:26:14+00:00
Paths:
Modified  /trunk/madman/Rpacks/focalCall/DESCRIPTION
Modified  /trunk/madman/Rpacks/focalCall/NEWS
Modified  /trunk/madman/Rpacks/focalCall/README.md
Commit made by the Bioconductor Git-SVN bridge.
Consists of 3 commits.

Commit information:

Commit id: eaf22974bfee9566c314dfb0e0ed5b5fea10d83c

    Added last changes in the READme file

Committed by: Oscar Krijgsman
Author Name: Oscar Krijgsman
Commit date: 2014-10-17 13:25:21 +0200
Author date: 2014-10-17 13:25:21 +0200

Commit id: aa568c12ba825f8d3895e58c037e0cf5f11082e9

    Merge branch 'master' of https://github.com/OscarKrijgsman/focalCall

    Conflicts:
        DESCRIPTION

Committed by: Oscar Krijgsman
Author Name: Oscar Krijgsman
Commit date: 2014-10-17 13:24:15 +0200
Author date: 2014-10-17 13:24:15 +0200

Commit id: ed9dd97b487dd9db6acf2a6356eb9868792ec370

    Updated the README file

Committed by: Oscar Krijgsman
Author Name: Oscar Krijgsman
Commit date: 2014-10-17 13:20:29 +0200
Author date: 2014-10-17 13:20:29 +0200
Revision: 95673
Author: t.hardcastle
Date: 2014-10-17T11:19:10+00:00
Paths:
Modified  /trunk/madman/Rpacks/baySeq/DESCRIPTION
Modified  /trunk/madman/Rpacks/baySeq/R/densDensityFunctions.R
Modified  /trunk/madman/Rpacks/baySeq/R/densityFunctions.R
Modified  /trunk/madman/Rpacks/baySeq/R/topCounts.R
v.2.1.1 bugfixes to normal and multinomial-dirichlet density functions, and in topCounts
Revision: 95672
Author: o.krijgsman
Date: 2014-10-17T11:16:12+00:00
Paths:
Added  /trunk/madman/Rpacks/focalCall/README.md
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit.

Commit information:

Commit id: 6a7250adfbd6edc990ea6e7444d7710957d6f022

    Create README.md

Committed by: OscarKrijgsman
Author Name: OscarKrijgsman
Commit date: 2014-10-17 13:16:06 +0200
Author date: 2014-10-17 13:16:06 +0200
Revision: 95669
Author: e.bernard
Date: 2014-10-17T10:18:27+00:00
Paths:
Modified  /trunk/madman/Rpacks/flipflop/DESCRIPTION
Modified  /trunk/madman/Rpacks/flipflop/inst/NEWS
Modified  /trunk/madman/Rpacks/flipflop/src/readgroup.cpp
solve small bugs in possiblty duplicated read types
Revision: 95666
Author: m.lawrence
Date: 2014-10-17T02:44:50+00:00
Paths:
Modified  /trunk/madman/Rpacks/IRanges/DESCRIPTION
bump the version, and S4Vectors dep

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