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View892eabd
Fixed bug in readAligned_character() where type="BAM" just returned the function instead of dispatching.James MacDonald authored on 28/04/2010 17:21:31 |
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Viewdf7507d
bug fixes to qa() - calculated perCycle quality Score incorrectly (this was not used in report()) - type=SolexaExportQA mislabelled 'aligned' and 'filtered' readsMartin Morgan authored on 27/04/2010 19:15:01 |
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View79258e8
git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_6/madman/Rpacks/ShortRead@46404 bc3139a8-67e5-0310-9ffc-ced21a209358Patrick Aboyoun authored on 22/04/2010 18:36:49 |
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View900598d
Bumped version numbers for BioC 2.6 releasePatrick Aboyoun authored on 22/04/2010 18:21:23 |
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View827727e
Add coerce,AlignedRead,GRangesMichael Lawrence authored on 13/04/2010 19:52:07 |
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View63cc00c
avoid unnecessary naming rows of .QA data framesMartin Morgan authored on 12/04/2010 23:25:32 |
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Viewe0273c3
dustyFilter can work in 'batch' mode - some unit test tidyMartin Morgan authored on 09/04/2010 19:09:29 |
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View95af895
dustyFilter works on DNAStringSet directly, as well as ShortRead*Martin Morgan authored on 09/04/2010 10:37:17 |
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View2ebd044
add readAligned type="BAM"Martin Morgan authored on 05/04/2010 17:53:56 |
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View114a194
Refactored IRanges::resize and reorganized interval methods.Patrick Aboyoun authored on 19/03/2010 08:01:13 |
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View80c2253
Moved the following stuff from BSgenome to the new GenomicRanges package: - seqnames() and seqnames<-() generics; - strand() and strand<-() generics + methods; - GRanges and GRangesList classes + related methods + related unit tests. Updated rtracklayer, GenomicFeatures, ShortRead and Rsamtools accordingly.Herve Pages authored on 12/03/2010 08:24:05 |
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Viewd131490
Removed long deprecated arguments start & end from coverage methods.Patrick Aboyoun authored on 09/03/2010 18:04:31 |
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View879ccad
tidy unit testsMartin Morgan authored on 28/02/2010 18:43:08 |
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View687a05a
re-level strand() to "+", "-", "*", consistent w/ BSgenomeMartin Morgan authored on 28/02/2010 18:42:45 |
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View65dbc11
consistently use Rf_error("'%s' must be '%s'", ...) constructMartin Morgan authored on 27/02/2010 17:00:29 |