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[samtools.git] / bcftools /
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
2010-09-16 Heng Li * added varFilter to vcfutils.pl tree | commitdiff
2010-09-15 Heng Li * convert BCF to QCALL input tree | commitdiff
2010-09-15 Heng Lifixed a minor issue tree | commitdiff
2010-09-08 Heng Li * samtools-0.1.8-13 (r715) tree | commitdiff
2010-09-03 Heng Liquite a lot changes to the contrast caller, but I still... tree | commitdiff
2010-09-03 Heng Li * changed 3.434 to 4.343 (typo!) tree | commitdiff
2010-09-02 Heng LiSNP calling from the GL field tree | commitdiff
2010-09-01 Heng Lifixed another problem tree | commitdiff
2010-09-01 Heng Li * fixed bugs in parsing VCF tree | commitdiff
2010-09-01 Heng LiDo not compile _BCF_QUAD by default tree | commitdiff
2010-09-01 Heng LiWrite the correct ALT and PL in the SNP calling mode. tree | commitdiff
2010-09-01 Heng Limore commands for my own uses tree | commitdiff
2010-09-01 Heng LiUtilities for processing VCF tree | commitdiff
2010-08-31 Heng Lipreliminary contrast variant caller tree | commitdiff
2010-08-31 Heng Liz' and z'' can be calculated tree | commitdiff
2010-08-31 Heng Li * rename vcfout.c as call1.c tree | commitdiff
2010-08-24 Heng Lifixed a bug in calculating the t statistics tree | commitdiff
2010-08-24 Heng Li * samtools-0.1.8-13 (r698) tree | commitdiff
2010-08-24 Heng Liadded regularized incomplete beta function tree | commitdiff
2010-08-23 Heng Liprint QUAL as floating numbers tree | commitdiff
2010-08-18 Heng Liallow to read the prior from the error output. EM itera... tree | commitdiff
2010-08-17 Heng Li * write a little more VCF header tree | commitdiff
2010-08-17 Heng Liuse float for QUAL tree | commitdiff
2010-08-14 Heng Lifaster for large sample size (in principle) tree | commitdiff
2010-08-14 Heng Li * a numerically stable method to calculate z_{jk} tree | commitdiff
2010-08-12 Heng Lifixed an issue in parsing integer tree | commitdiff
2010-08-09 Heng Lido not print refname if file is converted from VCF tree | commitdiff
2010-08-09 Heng Li * parse PL tree | commitdiff
2010-08-09 Heng Li * fixed a bug in kstrtok@kstring.c tree | commitdiff
2010-08-09 Heng Li * improved kstring (added kstrtok) tree | commitdiff
2010-08-09 Heng Lihelp messages tree | commitdiff
2010-08-09 Heng Liperform single-tail test for ED4 tree | commitdiff
2010-08-09 Heng Li * test depth, end distance and HWE tree | commitdiff
2010-08-08 Heng Lireimplement incomplete gamma functions. no copy-paste tree | commitdiff
2010-08-07 Heng Li * bcftools: add HWE (no testing for now) tree | commitdiff
2010-08-06 Heng Li * Special functions: log(gamma()), erfc(), P(a,x)... tree | commitdiff
2010-08-06 Heng LiFisher's exact test tree | commitdiff
2010-08-05 Heng Li * the code base is stablized again. tree | commitdiff
2010-08-05 Heng Liunfinished vcf parser tree | commitdiff
2010-08-05 Heng Li * added prelimiary VCF parser (not finished) tree | commitdiff
2010-08-04 Heng Li * allow to set min base q tree | commitdiff
2010-08-04 Heng Lispec tree | commitdiff
2010-08-04 Heng Lifixed compilation error tree | commitdiff
2010-08-04 Heng Limove bcftools to samtools tree | commitdiff
Mirror of samtools with my branches