421 Commits (master)
 

Author SHA1 Message Date
georgeG 0fcb6d71e6 hyperlink sources that are web accessible 7 years ago
georgeG d56497f883 move intuative example names 7 years ago
georgeG c628184ed3 minor edit 7 years ago
georgeG 647d40105f headings 7 years ago
georgeG 59c3404f73 restate the BioD aims. Add section skeletons 7 years ago
georgeG 6d295fb327 improve readme 7 years ago
Artem Tarasov daa190d71d avoid allocs in BamWriter.writeRecord 8 years ago
Artem Tarasov 5d94926633 allocate tasks once in bam reader 8 years ago
Artem Tarasov 62149dfce4 add BamRead.is_supplementary 8 years ago
Artem Tarasov dab969123b fix merging single-ref sam headers 8 years ago
Artem Tarasov 8864d250d1 fix parsing '*' base quals in SAM 8 years ago
Artem Tarasov 2765f2f5d1 fixes here and there 8 years ago
Artem Tarasov 72e1fade5f allow disabling auto indexing 8 years ago
Artem Tarasov a0ec76329e fix compilation with 2.066 8 years ago
Artem Tarasov 9a4617db0c add missing file 8 years ago
Artem Tarasov 6acc15dd15 use own zlib headers 8 years ago
Artem Tarasov c1f5066b88 Merge branch 'master' of https://github.com/biod/BioD 8 years ago
Artem Tarasov 2a565b8899 automatic index creation 8 years ago
atarasov 7e8e610443 minor fixes for 2.067 8 years ago
Artem Tarasov 7fbf5a8166 speedup header parsing; 8 years ago
Artem Tarasov 8a2288ac2e allow negative predicted insert size; closes #9 8 years ago
Artem Tarasov f68337d4b4 move tag reading where it belongs 8 years ago
Artem Tarasov 500a75fab4 hasReference and opIndex methods for SamReader 8 years ago
Artem Tarasov 9a6eef83ce BamRegion new methods 8 years ago
Artem Tarasov 4d004ea5b6 more general pileup, MultiBamRead type 8 years ago
Artem Tarasov fef5ce3000 MultiBamReader bed support 8 years ago
Artem Tarasov bfbef7fcf7 fix compilation on 2.065 8 years ago
Artem Tarasov 58c15503d4 fix a bug in BED intersection routine 8 years ago
Artem Tarasov b681918112 fixes lomereiter/sambamba#78 8 years ago
Artem Tarasov 03c43a0293 add testcase 8 years ago
Artem Tarasov a5c27a2202 return correct end vo for last reference 8 years ago
Artem Tarasov 4779c702b3 avoid nested context 9 years ago
Artem Tarasov 099234c3a7 fixed a noncompiling template 9 years ago
Artem Tarasov 94c0af7802 new file 9 years ago
Artem Tarasov 92ee262797 fix whitespace 9 years ago
Artem Tarasov f48d1c11ee started to work on lomereiter/sambamba#58 9 years ago
atarasov 0d84967ed9 don't make GC allocations in compressor 9 years ago
atarasov 7ef1426b98 allow to change bases/quals 9 years ago
Artem Tarasov a664938355 more informative error message for opening files 9 years ago
Artem Tarasov f88fe6479d fix unittests to compile with LDC 9 years ago
lomereiter 88bcc67d48 fix bin calculation in SAM parser 9 years ago
Artem Tarasov d71761530e fix reading from pipes 9 years ago
Artem Tarasov 79f0ec0753 tweakable queue sizes in bgzf streams 9 years ago
Artem Tarasov c664bfa7c3 oops... 9 years ago
Artem Tarasov 686954d88b account strand in coordinate comparison 9 years ago
Artem Tarasov 9353d909b1 fixed bugs in pileupChunks 9 years ago
Artem Tarasov ec30412d02 BamReader.unmappedReads method; 9 years ago
Artem Tarasov 404055126e make bin checking optional; 9 years ago
Artem Tarasov 3800f6805f new indexing, also computes statistics; closes #2 9 years ago
lomereiter 6e07483985 fix compilation on 2.064 9 years ago