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2013-01-07 Heng Lidump log-likelihood tree | commitdiff
2012-10-10 Petr DanecekComplain when BAM cannot be open. Severe bug fixed... tree | commitdiff
2012-09-12 Petr DanecekMerge remote branch 'remotes/pd3/master' tree | commitdiff
2012-07-18 Petr DanecekFix in output of missing haploid genotypes tree | commitdiff
2012-07-05 Petr DanecekAllow filtering by read group or sample name in bamchec... tree | commitdiff
2012-07-05 Petr DanecekVCF annotations with and without -m and more robust... tree | commitdiff
2012-07-03 Petr DanecekBug fixes tree | commitdiff
2012-07-02 Petr DanecekAlternative model for multiallelic and rare-variant... tree | commitdiff
2012-05-30 Petr DanecekFixed errors introduced by the 8c15f916dabce475febdf508... tree | commitdiff
2012-05-25 Petr DanecekFix to prevent long stretches of Ns to be mistaken... tree | commitdiff
2012-04-12 Petr DanecekOn behalf of Bradford Powell: fixed typo in VCF header... tree | commitdiff
2012-04-04 Petr DanecekMerge remote branch 'main/master' tree | commitdiff
2012-03-29 Heng LiMerge branch 'master' of github.com:samtools/samtools... tree | commitdiff
2012-03-20 Heng LiMerge branch 'master' into mt tree | commitdiff
2012-03-18 Heng Limulti-threading working on toy examples tree | commitdiff
2012-03-18 Heng Liupdated with the latest bgzf library tree | commitdiff
2012-03-09 Heng LiOn behalf of Petr: multi-allelic GT tree | commitdiff
2012-02-16 Heng Libugfix: wrong SP; missing DV in the VCF header tree | commitdiff
2012-02-08 Heng Lichanges from git tree | commitdiff
2011-08-17 Heng Li * bugfix in index: large memory when a read pos is 1 tree | commitdiff
2011-07-13 Heng Lisupport trio indels tree | commitdiff
2011-07-07 Heng Lifor WIN32 compatibility tree | commitdiff
2011-07-07 Heng LiRelease samtools-0.1.17 tree | commitdiff
2011-06-03 Heng Li * 0.1.16-dev (r969:252) tree | commitdiff
2011-04-22 Heng LiRelease samtools-0.1.16 (r963:234) tree | commitdiff
2011-04-17 Heng Li * fixed a bug in bedidx: input BED not sorted tree | commitdiff
2011-04-15 Heng Li * Added Brent's method for frequency estimate tree | commitdiff
2011-04-10 Heng LiRelease samtools-0.1.15 (r949:203) tree | commitdiff
2011-04-08 Heng Li * added bam_verbose global variable tree | commitdiff
2011-03-30 Heng Li * added BED support to samtools view and mpileup and... tree | commitdiff
2011-03-22 Heng LiRelease samtools-0.1.14 (r933:170) tree | commitdiff
2011-03-18 Heng Li * allow to change the compression level in BAM output tree | commitdiff
2011-03-08 Heng Liadded the haploid mode tree | commitdiff
2011-03-01 Heng LiRelease samtools-0.1.13 (r926:134) tree | commitdiff
2011-03-01 Heng Li * optionally drop phase ambiguous reads tree | commitdiff
2011-02-28 Heng Li * 0.1.12-r924:126 tree | commitdiff
2011-02-25 Heng Li * change the order of PL/GL according to the latest... tree | commitdiff
2011-02-25 Heng Liupdate the BCF spec tree | commitdiff
2011-02-24 Heng Liadded "const" to bcf_p1_cal() tree | commitdiff
2011-02-24 Heng Li * automatically fix errors in GL tree | commitdiff
2011-02-11 Heng Lifinished VCF->BCF conversion tree | commitdiff
2011-02-03 Petr DanecekPrevent division by zero tree | commitdiff
2011-02-02 Heng Lifixed a typo in the VCF header tree | commitdiff
2011-01-24 Heng Lifixed two minor bugs in Fisher's exact test tree | commitdiff
2011-01-19 Petr DanecekSkip sites with unknown ref tree | commitdiff
2011-01-06 Heng Li * samtools-0.1.12-10 (r896) tree | commitdiff
2011-01-04 Heng Lisorry. It is SP not ST tree | commitdiff
2011-01-04 Heng Liadded ST tree | commitdiff
2011-01-04 Petr DanecekFixed a typo in read_samples tree | commitdiff
2010-12-28 On behalf of John... System libraries go *after* user libraries in link... tree | commitdiff
2010-12-21 Heng Li * samtools-0.1.12-9 (r891) tree | commitdiff
2010-12-14 Petr DanecekFixed the VCF header to pass validation tree | commitdiff
2010-12-13 Heng Li * samtools-0.1.12-4 (r884) tree | commitdiff
2010-12-12 Heng Licompute max SP and max GQ from sample genotypes tree | commitdiff
2010-12-10 Heng Lidrop bcf-fix.pl as it is redundant by the latest changes tree | commitdiff
2010-12-10 Heng Li * fixed a minor issue in printing VCFs tree | commitdiff
2010-12-10 Heng LiMake sure that the GT genotype field is the first tree | commitdiff
2010-12-07 Heng Lifixed a bug in vcf2fq tree | commitdiff
2010-12-05 Heng LiIn ksprintf(), change "%lf" and "%lg" to "%f" and ... tree | commitdiff
2010-12-05 Heng LiFixed a compiling error when knetfile is not used. tree | commitdiff
2010-12-04 Heng Livcf->fastq tree | commitdiff
2010-12-03 Heng Li * remove "-f". Instead always compute consensus quality tree | commitdiff
2010-12-03 Heng Limore informative error message tree | commitdiff
2010-12-02 Heng Lia possible fix to DP4=0,0,0,0; have not tested, but... tree | commitdiff
2010-12-02 Heng Li * samtools-0.1.11-1 (r858) tree | commitdiff
2010-11-26 Heng Li * fixed a memory violation tree | commitdiff
2010-11-23 Heng Lifixed a typo/bug in r^2 computation tree | commitdiff
2010-11-22 Heng LiRelease samtools-0.1.11 tree | commitdiff
2010-11-20 Heng Li * samtools-0.1.10-9 (r844) tree | commitdiff
2010-11-18 Heng Li * modify the filtering rule: also filter SNPs around... tree | commitdiff
2010-11-16 Heng Libcftools: allow to skip indels tree | commitdiff
2010-11-16 Heng Li * samtools-0.1.9-17 (r824) tree | commitdiff
2010-11-15 Heng Li * samtools-0.1.9-16 (r822) tree | commitdiff
2010-11-12 Heng Li * samtools-0.1.19-11 (r817) tree | commitdiff
2010-11-10 Heng Lifixed a typo tree | commitdiff
2010-11-10 Heng Liuse zlib for direct reading when BCF_LITE is in use tree | commitdiff
2010-11-10 Heng Li * samtools-0.1.9-8 (r807) tree | commitdiff
2010-11-10 Heng Libcftools: compute equal-tail (Bayesian) credible interval tree | commitdiff
2010-11-09 Heng Liadded a double-hit filter to avoid overestimated indel... tree | commitdiff
2010-11-09 Heng Li * samtools-0.1.9-6 (r803) tree | commitdiff
2010-11-08 Heng Lifixed another silly bug in mpileup's indel caller tree | commitdiff
2010-11-03 Heng Lifixed a minor problem in the example coming with kprobaln.c tree | commitdiff
2010-10-29 Heng Li * samtools-0.1.9-1 (r786) tree | commitdiff
2010-10-29 Heng LiOptionally output "DP", the individual read depth tree | commitdiff
2010-10-14 Heng Liimprove the LD statistics tree | commitdiff
2010-10-13 Heng Li * a minor fix to the -L option tree | commitdiff
2010-10-12 Heng Lia minor change tree | commitdiff
2010-10-12 Heng Liforget to add the key file tree | commitdiff
2010-10-12 Heng Li * vcfutils.pl: fixed a typo in help message tree | commitdiff
2010-10-11 Heng Liadded filter for samtools/bcftools genetated VCFs tree | commitdiff
2010-10-05 Heng Li * removed a comment line in kaln.c tree | commitdiff
2010-10-05 Petr DanecekConvert VCF output of "bcftools view -bgcv" to a valid... tree | commitdiff
2010-10-03 Heng Li * samtools-0.1.8-18 (r763) tree | commitdiff
2010-10-03 Heng Li * vcfutils.pl qstats: calculate marginal ts/tv tree | commitdiff
2010-09-20 Heng Liimprove qstats by checking the alleles as well tree | commitdiff
2010-09-17 Heng Liconvert UCSC SNP SQL dump to VCF tree | commitdiff
2010-09-17 Heng Lihapmap2vcf convertor tree | commitdiff
2010-09-17 Heng Li * added comments tree | commitdiff
2010-09-17 Heng Li * put n_smpl to "bcf1_t" to simplify API a little tree | commitdiff
2010-09-17 Heng Lifixed a bug in indexing tree | commitdiff
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