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merge with remoteio branch
[bamtools.git] / src / toolkit /
2011-11-28 derekmerge with remoteio branch tree | commitdiff
2011-11-28 derekUpdated CMakeLists.txt files tree | commitdiff
2011-10-14 derekFixed regression: improper @SQ line ordering in SamHead... tree | commitdiff
2011-10-14 derekMinor cleanup in FilterTool tree | commitdiff
2011-10-12 derekMajor speedup in SamSequenceDictionary & SamReadGroupDi... tree | commitdiff
2011-10-11 derekCleanup in SortTool tree | commitdiff
2011-10-10 derekCleaned up intra-API includes & moved version numbers... tree | commitdiff
2011-10-09 derekConverted intervals from 0-based, CLOSED to 0-based... tree | commitdiff
2011-10-07 derekMerge with earlier IODevice work tree | commitdiff
2011-10-03 derekmerge conflict tree | commitdiff
2011-10-03 derekMultiReader (&MultiMerger) now using Algorithms::Sort... tree | commitdiff
2011-09-30 derekInitial test run of new BamAlgorithms tree | commitdiff
2011-09-28 derekFix: unmapped reads now pushed to end of coordinate... tree | commitdiff
2011-09-10 derekMerge branches 'master' and 'iodevice' into iodevice tree | commitdiff
2011-09-10 derekMinor cleanup tree | commitdiff
2011-09-02 derekAdded "isSingleton" property to filter tool tree | commitdiff
2011-07-06 derekAdded a -minMQ (minimum map quality) option to ResolveTool tree | commitdiff
2011-06-28 Derek BarnettMerge pull request #13 from alecchap/master tree | commitdiff
2011-06-28 derekAdded unique-alignment checks for ResolveTool tree | commitdiff
2011-06-28 Alec ChapmanFix Visual Studio compiler errors. tree | commitdiff
2011-06-14 derekImplemented better coupling of unmapped reads with... tree | commitdiff
2011-06-14 derekFurther fixes for ISIZE-handling in ResolveTool tree | commitdiff
2011-06-13 derekFixed some signed/unsigned InsertSize bugs in ResolveTool tree | commitdiff
2011-06-11 derekConvertTool fix: removed extra space in (BAM->FASTA... tree | commitdiff
2011-06-11 derekCreated 3 modes for ResolveTool: makeStats, markPairs... tree | commitdiff
2011-06-07 derekAdded new ResolveTool - for paired-end resolution.... tree | commitdiff
2011-06-07 derekMinor cleanup to toolkit code formatting. tree | commitdiff
2011-05-05 Derek BarnettMerge pull request #9 from bookest/patch-1 tree | commitdiff
2011-05-05 Christopher Grim'make install' should install bin/bamtools tree | commitdiff
2011-04-19 derekBrought API up to compliance with recent SAM Format... tree | commitdiff
2011-03-23 derekMajor update to BamTools version 1.0 tree | commitdiff
2010-12-16 derekFixed: Improper sorting -byname tree | commitdiff
2010-12-13 derekMinor formatting cleanup tree | commitdiff
2010-12-06 derekFixed : improper exit code from FilterTool tree | commitdiff
2010-12-06 derekFixed: core mode setting for BamMultiReader::Open(... tree | commitdiff
2010-12-06 derekAdded new RevertTool to the toolkit tree | commitdiff
2010-11-22 derekAdded proper import of bamtools version info from CMake tree | commitdiff
2010-11-19 derekMigrated to CMake build system. tree | commitdiff
2010-11-18 derekChanged GetNextAlignmentCore() calls to GetNextAlignmen... tree | commitdiff
2010-11-15 derekMinor formatting cleanup tree | commitdiff
2010-10-27 Erik GarrisonMerge branch 'master' of http://github.com/pezmaster31... tree | commitdiff
2010-10-25 derekUpdated BamTools version information. tree | commitdiff
2010-10-16 Derekmodified/clarified some help & usage messages tree | commitdiff
2010-10-05 DerekMinor formatting, commenting cleanup tree | commitdiff
2010-10-04 derekAdded tag support in filter tool. tree | commitdiff
2010-10-04 derekReviewed BAM to YAML conversion contribution (thank... tree | commitdiff
2010-09-29 Erik Garrisonconvert: cleanup of prior fix, report if no index file... tree | commitdiff
2010-09-29 Erik Garrisonprior commit caused bug with convert tree | commitdiff
2010-09-28 Erik Garrisonexposes cigar string data to bamtools filter tree | commitdiff
2010-09-28 Erik Garrisonadded reader.Open checks to a number of tools tree | commitdiff
2010-09-28 Chase MillerAdded Yaml for outputing BamAlignments. tree | commitdiff
2010-09-28 Erik GarrisonMerge branch 'master' of http://github.com/pezmaster31... tree | commitdiff
2010-09-23 DerekFixed lack of reverse complemented output in BAM -... tree | commitdiff
2010-09-23 Erik GarrisonMerge branch 'master' of http://github.com/pezmaster31... tree | commitdiff
2010-09-22 DerekImplemented 'compound rule' logic in the FilterTool... tree | commitdiff
2010-09-20 DerekCleaned up SplitTool internal implementation. Use of... tree | commitdiff
2010-09-20 Erik GarrisonMerge branch 'master' of http://github.com/pezmaster31... tree | commitdiff
2010-09-19 DerekAdded implementation of new SplitTool. This tool split... tree | commitdiff
2010-09-17 Erik GarrisonMerge branch 'master' of http://github.com/pezmaster31... tree | commitdiff
2010-09-16 DerekAdded new PileupEngine to the toolkit. This is used... tree | commitdiff
2010-09-08 Erik Garrisonprefer bamtools index in BamMultiReader tree | commitdiff
2010-09-08 Erik GarrisonMerge branch 'master' of git://github.com/pezmaster31... tree | commitdiff
2010-09-07 DerekDocumentation update tree | commitdiff
2010-09-07 DerekAdded -region option to bamtools_merge tree | commitdiff
2010-09-03 DerekCleaned up index file handling throughout toolkit.... tree | commitdiff
2010-09-02 DerekModified help description for -bti option tree | commitdiff
2010-09-01 DerekAdded uncompressed output as default behavior for Filte... tree | commitdiff
2010-08-30 DerekPosted implementation of FilterTool. tree | commitdiff
2010-08-30 DerekMinor formatting & commenting update tree | commitdiff
2010-08-30 DerekAdded JsonCPP code to repo. Will be used by FilterTool... tree | commitdiff
2010-08-18 DerekMissed a Makefile in last commit - just adding header... tree | commitdiff
2010-08-18 DerekReorganized source tree & build system tree | commitdiff
Branch of bamtools which has rudimentary Debian packaging