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samtools.git
2011-07-13 Heng Lisupport trio indels commit | commitdiff | tree | snapshot
2011-07-07 Heng Lifor WIN32 compatibility commit | commitdiff | tree | snapshot
2011-07-07 Heng Lifixed a bug in bam_plcmd.c commit | commitdiff | tree | snapshot
2011-07-07 Heng LiRelease samtools-0.1.17 commit | commitdiff | tree | snapshot
2011-06-15 Heng Lifixed a bug caused by a recent patch commit | commitdiff | tree | snapshot
2011-06-03 Heng Li * 0.1.16-dev (r969:252) commit | commitdiff | tree | snapshot
2011-04-22 Heng LiRemoved the pileup command commit | commitdiff | tree | snapshot
2011-04-22 Heng LiRelease samtools-0.1.16 (r963:234) commit | commitdiff | tree | snapshot
2011-04-21 Heng Lifixed a bug in merge commit | commitdiff | tree | snapshot
2011-04-18 Heng LiAdded the support for the new SAM/BAM type "B" commit | commitdiff | tree | snapshot
2011-04-17 Heng Li * fixed a bug in bedidx: input BED not sorted commit | commitdiff | tree | snapshot
2011-04-15 Heng Li * Added Brent's method for frequency estimate commit | commitdiff | tree | snapshot
2011-04-10 Heng LiRelease samtools-0.1.15 (r949:203) commit | commitdiff | tree | snapshot
2011-04-08 Heng Li * added bam_verbose global variable commit | commitdiff | tree | snapshot
2011-04-01 Heng Liadded quality filtering commit | commitdiff | tree | snapshot
2011-04-01 Heng Lifixed a few typos in comments commit | commitdiff | tree | snapshot
2011-04-01 Heng LiAdded an example of using mpileup commit | commitdiff | tree | snapshot
2011-03-31 Heng Li * synchronize bgzf in tabix and in samtools commit | commitdiff | tree | snapshot
2011-03-30 Heng Li * added BED support to samtools view and mpileup and... commit | commitdiff | tree | snapshot
2011-03-22 Heng LiRelease samtools-0.1.14 (r933:170) commit | commitdiff | tree | snapshot
2011-03-18 Heng Liforget to add this file commit | commitdiff | tree | snapshot
2011-03-18 Heng Li * allow to change the compression level in BAM output commit | commitdiff | tree | snapshot
2011-03-18 Heng Liexport2sam.pl-2.3.1, provided by Chris Saunders from... commit | commitdiff | tree | snapshot
2011-03-08 Heng Liadded the haploid mode commit | commitdiff | tree | snapshot
2011-03-01 Heng LiRelease samtools-0.1.13 (r926:134) commit | commitdiff | tree | snapshot
2011-03-01 Heng Li * optionally drop phase ambiguous reads commit | commitdiff | tree | snapshot
2011-02-28 Heng Liminor changes to a heuristic rule commit | commitdiff | tree | snapshot
2011-02-28 Heng Li * 0.1.12-r924:126 commit | commitdiff | tree | snapshot
2011-02-28 Heng Li * put version number in bam.h commit | commitdiff | tree | snapshot
2011-02-25 Heng Li * change the order of PL/GL according to the latest... commit | commitdiff | tree | snapshot
2011-02-25 Heng Liupdate the BCF spec commit | commitdiff | tree | snapshot
2011-02-25 Heng Liadded the phase command commit | commitdiff | tree | snapshot
2011-02-24 Heng Liadded "const" to bcf_p1_cal() commit | commitdiff | tree | snapshot
2011-02-24 Heng Limore meaningful BAM truncation message commit | commitdiff | tree | snapshot
2011-02-24 Heng Li * automatically fix errors in GL commit | commitdiff | tree | snapshot
2011-02-11 Heng Lifinished VCF->BCF conversion commit | commitdiff | tree | snapshot
2011-02-03 Petr DanecekPrevent division by zero commit | commitdiff | tree | snapshot
2011-02-02 Heng Lifixed a typo in the VCF header commit | commitdiff | tree | snapshot
2011-02-02 Heng Li * fixed an out-of-boundary bug commit | commitdiff | tree | snapshot
2011-01-30 Heng Li * avoid a segfault when network connect fails commit | commitdiff | tree | snapshot
2011-01-27 Heng Li * fixed a rare memory issue in bam_md.c commit | commitdiff | tree | snapshot
2011-01-24 Heng Lifixed two minor bugs in Fisher's exact test commit | commitdiff | tree | snapshot
2011-01-19 Petr DanecekSkip sites with unknown ref commit | commitdiff | tree | snapshot
2011-01-15 Heng Limove bam_nt16_nt4_table[] from bam_maqcns.c to bam_md.c commit | commitdiff | tree | snapshot
2011-01-06 Heng Li * samtools-0.1.12-10 (r896) commit | commitdiff | tree | snapshot
2011-01-04 Heng Lisorry. It is SP not ST commit | commitdiff | tree | snapshot
2011-01-04 Heng Liadded ST commit | commitdiff | tree | snapshot
2011-01-04 Petr DanecekFixed a typo in read_samples commit | commitdiff | tree | snapshot
2010-12-28 On behalf of... System libraries go *after* user libraries in link... commit | commitdiff | tree | snapshot
2010-12-21 Heng Li * samtools-0.1.12-9 (r891) commit | commitdiff | tree | snapshot
2010-12-15 Heng Li * samtools-0.1.12-12 (r889) commit | commitdiff | tree | snapshot
2010-12-15 Heng LiWhen -B is applied to mpileup, still use paired reads... commit | commitdiff | tree | snapshot
2010-12-15 Heng Li * samtools-0.1.12-6 (r887) commit | commitdiff | tree | snapshot
2010-12-14 Heng Li(Arguably) improved the indel caller a tiny bit for... commit | commitdiff | tree | snapshot
2010-12-14 Petr DanecekFixed the VCF header to pass validation commit | commitdiff | tree | snapshot
2010-12-13 Heng Li * samtools-0.1.12-4 (r884) commit | commitdiff | tree | snapshot
2010-12-12 Heng Licompute max SP and max GQ from sample genotypes commit | commitdiff | tree | snapshot
2010-12-10 Heng Lidrop bcf-fix.pl as it is redundant by the latest changes commit | commitdiff | tree | snapshot
2010-12-10 Heng Li * fixed a minor issue in printing VCFs commit | commitdiff | tree | snapshot
2010-12-10 Heng LiMake sure that the GT genotype field is the first commit | commitdiff | tree | snapshot
2010-12-08 Heng Li * samtools-0.1.12-2 (r877) commit | commitdiff | tree | snapshot
2010-12-08 Heng Lia spelling error.. commit | commitdiff | tree | snapshot
2010-12-08 Heng Li * samtools-0.1.12-1 (r873) commit | commitdiff | tree | snapshot
2010-12-07 Heng Lifixed a bug in vcf2fq commit | commitdiff | tree | snapshot
2010-12-05 Heng Liadded a warning for the Windows version commit | commitdiff | tree | snapshot
2010-12-05 Heng LiIn ksprintf(), change "%lf" and "%lg" to "%f" and ... commit | commitdiff | tree | snapshot
2010-12-05 Heng Libring back the windows support commit | commitdiff | tree | snapshot
2010-12-05 Heng LiFixed a compiling error when knetfile is not used. commit | commitdiff | tree | snapshot
2010-12-04 Heng Livcf->fastq commit | commitdiff | tree | snapshot
2010-12-03 Heng Li * remove "-f". Instead always compute consensus quality commit | commitdiff | tree | snapshot
2010-12-03 Heng Limore informative error message commit | commitdiff | tree | snapshot
2010-12-02 Heng LiRelease samtools-0.1.12a commit | commitdiff | tree | snapshot
2010-12-02 Heng Lia possible fix to DP4=0,0,0,0; have not tested, but... commit | commitdiff | tree | snapshot
2010-12-02 Heng LiRelease samtools-0.1.12 commit | commitdiff | tree | snapshot
2010-12-02 Heng Li * samtools-0.1.11-1 (r858) commit | commitdiff | tree | snapshot
2010-12-01 Heng Lifixed a memory leak in bam_fetch() commit | commitdiff | tree | snapshot
2010-11-26 Heng Li * fixed a memory violation commit | commitdiff | tree | snapshot
2010-11-23 Heng Lifixed a typo/bug in r^2 computation commit | commitdiff | tree | snapshot
2010-11-22 Heng Liforget to change the version information commit | commitdiff | tree | snapshot
2010-11-22 Heng LiRelease samtools-0.1.11 commit | commitdiff | tree | snapshot
2010-11-20 Heng Li * samtools-0.1.10-9 (r844) commit | commitdiff | tree | snapshot
2010-11-20 Heng LiIn merging, if -R is specified, do not abort if the... commit | commitdiff | tree | snapshot
2010-11-20 On behalf of... When merging BAM headers, compare the list of target... commit | commitdiff | tree | snapshot
2010-11-19 Heng Li * samtools-0.1.10 (r841) commit | commitdiff | tree | snapshot
2010-11-19 Heng Li * samtools-0.1.10-4 (r840) commit | commitdiff | tree | snapshot
2010-11-18 Heng Li * samtools-0.1.10-6 (r839) commit | commitdiff | tree | snapshot
2010-11-18 Heng LiApply a patch by Rob Davis, which improves fault detection. commit | commitdiff | tree | snapshot
2010-11-18 Heng Li * samtools-r836 commit | commitdiff | tree | snapshot
2010-11-18 Heng Li * modify the filtering rule: also filter SNPs around... commit | commitdiff | tree | snapshot
2010-11-18 Heng Li * samtools-0.1.10-4 (r834) commit | commitdiff | tree | snapshot
2010-11-18 Heng Lifixed a bug in printing MNPs commit | commitdiff | tree | snapshot
2010-11-18 Heng Liminor change to how seqQ is applied commit | commitdiff | tree | snapshot
2010-11-18 Heng Li * samtools-0.1.10 (r831) commit | commitdiff | tree | snapshot
2010-11-17 Heng LiRelease samtools-0.1.10 (r829) commit | commitdiff | tree | snapshot
2010-11-17 Heng Liupdate version information: samtools-0.1.9-20 (r828) commit | commitdiff | tree | snapshot
2010-11-16 Heng Libcftools: allow to skip indels commit | commitdiff | tree | snapshot
2010-11-16 Heng Liremove ZQ if both BQ and ZQ are present commit | commitdiff | tree | snapshot
2010-11-16 Heng Li * samtools-0.1.9-18 (r825) commit | commitdiff | tree | snapshot
2010-11-16 Heng Li * samtools-0.1.9-17 (r824) commit | commitdiff | tree | snapshot
2010-11-15 Heng Li * samtools-0.1.9-r823 commit | commitdiff | tree | snapshot
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