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samtools.git
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
2010-11-15 Heng Li * samtools-0.1.9-16 (r822) commit | commitdiff | tree | snapshot
2010-11-13 Heng Li * samtools-0.1.9-15 (r821) commit | commitdiff | tree | snapshot
2010-11-13 Heng Li * samtools-0.1.9-14 (r820) commit | commitdiff | tree | snapshot
2010-11-13 Heng Li * samtools-0.1.9-13 (r819) commit | commitdiff | tree | snapshot
2010-11-12 Heng Li * samtools-r818 commit | commitdiff | tree | snapshot
2010-11-12 Heng Li * samtools-0.1.19-11 (r817) commit | commitdiff | tree | snapshot
2010-11-11 Heng Li * samtools-0.1.9-10 (r816) commit | commitdiff | tree | snapshot
2010-11-11 Heng Lieffectively revert to the viterbi version. The forward... commit | commitdiff | tree | snapshot
2010-11-11 Heng Li * samtools-0.1.9-9 (r810) commit | commitdiff | tree | snapshot
2010-11-11 Heng Li * prepare to replace kaln with kprobaln in realignment commit | commitdiff | tree | snapshot
2010-11-10 Heng Lifixed a typo commit | commitdiff | tree | snapshot
2010-11-10 Heng Liuse zlib for direct reading when BCF_LITE is in use commit | commitdiff | tree | snapshot
2010-11-10 Heng Li * do not use reads containing too many mismatches... commit | commitdiff | tree | snapshot
2010-11-10 Heng Li * samtools-0.1.9-8 (r809) commit | commitdiff | tree | snapshot
2010-11-10 Heng Liminor change to makefile commit | commitdiff | tree | snapshot
2010-11-10 Heng Li * samtools-0.1.9-8 (r807) commit | commitdiff | tree | snapshot
2010-11-10 Heng Libcftools: compute equal-tail (Bayesian) credible interval commit | commitdiff | tree | snapshot
2010-11-09 Heng Liadded a double-hit filter to avoid overestimated indel... commit | commitdiff | tree | snapshot
2010-11-09 Heng Li * samtools-0.1.9-7 (r804) commit | commitdiff | tree | snapshot
2010-11-09 Heng Li * samtools-0.1.9-6 (r803) commit | commitdiff | tree | snapshot
2010-11-09 Heng Li * samtools-0.1.9-5 (r802) commit | commitdiff | tree | snapshot
2010-11-09 Heng Li * samtools-0.1.9-4 (r801) commit | commitdiff | tree | snapshot
2010-11-08 Heng Lifixed another silly bug in mpileup's indel caller commit | commitdiff | tree | snapshot
2010-11-08 Heng Lifixed a silly bug in the indel caller commit | commitdiff | tree | snapshot
2010-11-08 Heng LiIncorporate patches by Marcel Martin for read counting. commit | commitdiff | tree | snapshot
2010-11-08 Heng Li * samtools-0.1.9-2 (r797) commit | commitdiff | tree | snapshot
2010-11-08 Heng Liindel calling is apparently working, but more informati... commit | commitdiff | tree | snapshot
2010-11-08 Heng Lifixed a few bugs in the indel caller. Probably there... commit | commitdiff | tree | snapshot
2010-11-08 Heng Liprepare for the indel caller. It is not ready yet. commit | commitdiff | tree | snapshot
2010-11-05 Heng LiRevert to r790. The recent changes are not good... commit | commitdiff | tree | snapshot
2010-11-05 Heng Li * this revision is UNSTABLE commit | commitdiff | tree | snapshot
2010-11-05 Heng Lifor backup. no effective changes commit | commitdiff | tree | snapshot
2010-11-03 Heng Lifixed a minor problem in the example coming with kprobaln.c commit | commitdiff | tree | snapshot
2010-11-02 Heng LiSeparate kaln and kprobaln as I am preparing further... commit | commitdiff | tree | snapshot
2010-11-02 Petr DanecekAdded -b option: read file names from a file commit | commitdiff | tree | snapshot
2010-10-30 Heng Li * samtools-0.1.9-2 (r787) commit | commitdiff | tree | snapshot
2010-10-29 Heng Li * samtools-0.1.9-1 (r786) commit | commitdiff | tree | snapshot
2010-10-29 Heng LiOptionally output "DP", the individual read depth commit | commitdiff | tree | snapshot
2010-10-28 Heng Liacknowledge Petr and John who have greatly contributed... commit | commitdiff | tree | snapshot
2010-10-28 Heng LiRelease samtools-0.1.9 (r783) commit | commitdiff | tree | snapshot
2010-10-27 Heng Lifixed a silly bug in pileup commit | commitdiff | tree | snapshot
2010-10-27 Heng Li * samtools-0.1.8-22 (r781) commit | commitdiff | tree | snapshot
2010-10-27 Heng Li * samtools-0.1.8-21 (r780) commit | commitdiff | tree | snapshot
2010-10-27 Heng Liimprove pileup a little bit commit | commitdiff | tree | snapshot
2010-10-27 Heng Li * samtools-0.1.8-20 (r778) commit | commitdiff | tree | snapshot
2010-10-26 Heng Li * samtools-0.1.8-19 (r777) commit | commitdiff | tree | snapshot
2010-10-26 Heng Liremove local realignment (probabilistic realignment... commit | commitdiff | tree | snapshot
2010-10-21 On behalf of... Add the relevant filename or region to error messages... commit | commitdiff | tree | snapshot
2010-10-19 Heng Li * Minor code changes. No real effect. commit | commitdiff | tree | snapshot
2010-10-19 Heng Liadded another toy example commit | commitdiff | tree | snapshot
2010-10-14 Heng Liimprove the LD statistics commit | commitdiff | tree | snapshot
2010-10-13 Heng Li * a minor fix to the -L option commit | commitdiff | tree | snapshot
2010-10-12 Heng Lia minor change commit | commitdiff | tree | snapshot
2010-10-12 Heng Liforget to add the key file commit | commitdiff | tree | snapshot
2010-10-12 Heng Li * vcfutils.pl: fixed a typo in help message commit | commitdiff | tree | snapshot
2010-10-11 Heng Liadded filter for samtools/bcftools genetated VCFs commit | commitdiff | tree | snapshot
2010-10-05 Heng Li * removed a comment line in kaln.c commit | commitdiff | tree | snapshot
2010-10-05 Petr DanecekConvert VCF output of "bcftools view -bgcv" to a valid... commit | commitdiff | tree | snapshot
2010-10-03 Heng Li * samtools-0.1.8-18 (r763) commit | commitdiff | tree | snapshot
2010-10-03 Heng Li * vcfutils.pl qstats: calculate marginal ts/tv commit | commitdiff | tree | snapshot
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