2010-08-07 |
Heng Li | * bcftools: add HWE (no testing for now) |
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2010-08-06 |
Heng Li | * Special functions: log(gamma()), erfc(), P(a,x)... |
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2010-08-06 |
Heng Li | Fisher's exact test |
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2010-08-06 |
Heng Li | * samtools-0.1.8-11 (r672) |
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2010-08-05 |
Heng Li | * the code base is stablized again. |
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2010-08-05 |
Heng Li | minor |
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2010-08-05 |
Heng Li | unfinished vcf parser |
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2010-08-05 |
Heng Li | * added prelimiary VCF parser (not finished) |
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2010-08-04 |
Heng Li | * allow to set min base q |
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2010-08-04 |
Heng Li | spec |
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2010-08-04 |
Heng Li | added more examples |
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2010-08-04 |
Heng Li | fixed compilation error |
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2010-08-04 |
Heng Li | move bcftools to samtools |
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2010-08-03 |
Heng Li | fixed another minor bug |
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2010-08-03 |
Heng Li | * samtools-0.1.8-10 (r658) |
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2010-08-03 |
Heng Li | * fixed a bug |
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2010-08-02 |
Heng Li | missing a column in VCF output... |
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2010-08-02 |
Heng Li | fixed a memory leak |
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2010-08-02 |
Heng Li | fixed a bug in bcf reader |
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2010-08-02 |
Heng Li | fixed a bug |
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2010-08-02 |
Heng Li | * samtools-0.1.8-9 (r649) |
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2010-08-02 |
Heng Li | Generate binary VCF |
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2010-07-28 |
Heng Li | * samtools-0.1.8-8 (r644) |
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2010-07-28 |
Heng Li | * fixed a STUPID bug, which cost me a lot of time. |
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2010-07-28 |
Heng Li | supposedly this is THE correct implementation, but... |
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2010-07-28 |
Heng Li | NOT ready yet. Going to make further changes... |
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2010-07-26 |
Heng Li | * samtools-0.1.8-7 (r639) |
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2010-07-25 |
Heng Li | * samtools-0.1.8-6 (r638) |
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2010-07-24 |
Heng Li | minor changes |
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2010-07-24 |
Heng Li | minor tweaks |
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2010-07-24 |
Heng Li | posterior expectation FINALLY working. I am so tired... |
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2010-07-23 |
Heng Li | another minor fix to mpileup |
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2010-07-23 |
Heng Li | added the format column |
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2010-07-23 |
Heng Li | added an alternative prior |
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2010-07-23 |
Heng Li | calculate posterior allele frequency |
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2010-07-23 |
Heng Li | * samtools-0.1.8-3 (r627) |
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2010-07-22 |
Heng Li | * preliminary multisample SNP caller. |
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2010-07-14 |
Heng Li | * samtools-0.1.8-2 (r617) |
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2010-07-14 |
Heng Li | * added mutli-sample framework. It is not working... |
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2010-07-13 |
Heng Li | * samtools-0.1.8-1 (r615) |
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2010-07-12 |
Heng Li | Release samtools-0.1.8 |
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2010-07-12 |
Heng Li | fixed a compiling issue for Windows |
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2010-07-12 |
Heng Li | fixed a bug in sorting when output to stdout (by Peter... |
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2010-07-09 |
Heng Li | change the command line option of pileup |
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2010-07-09 |
Heng Li | make pileup work with CIGAR with I/D at the beginning... |
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2010-07-09 |
Heng Li | * make tview more friendly |
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2010-07-08 |
Heng Li | * samtools-0.1.7-r607 |
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2010-07-08 |
Heng Li | removed a debugging example |
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2010-07-08 |
Heng Li | * samtools-.1.7-18 (r605) |
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2010-07-02 |
Heng Li | fixed a minor bug in idxstats |
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2010-06-16 |
Heng Li | fixed a minor bug in indexing |
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2010-06-15 |
Heng Li | change printf() to puts in exporting |
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2010-06-14 |
Heng Li | minor fix. No actual effect. |
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2010-06-14 |
Heng Li | added Makefile targets to compile shared/dynamic library |
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2010-06-13 |
Heng Li | * samtools-0.1.7-17 (r596) |
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2010-06-13 |
Heng Li | * samtools-0.1.7-16 (r595) |
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2010-06-13 |
Heng Li | fixed a bug for unmapped sequences in indexing |
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2010-06-12 |
Heng Li | rename iterf as iter |
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2010-06-12 |
Heng Li | * samtools-0.1.7-15 (r592) |
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2010-06-12 |
Heng Li | * samtools-0.1.7-14 (r591) |
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2010-06-12 |
Heng Li | * samtools-0.1.7-13 (r590) |
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2010-06-12 |
Heng Li | * samtools-0.1.7-12 (r589) |
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2010-06-11 |
Heng Li | * samtools-0.1.7-11 (r588) |
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2010-06-11 |
Heng Li | * samtools-0.1.7-10 (r587) |
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2010-06-11 |
Heng Li | * samtools-0.1.7-9 (r586) |
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2010-06-11 |
Heng Li | * samtools-0.1.7-8 (r585) |
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2010-06-11 |
Heng Li | * samtools-0.1.7-7 (r584) |
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2010-06-11 |
Petr Danecek | Initial release on behalf of Aylwyn Scally |
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2010-05-07 |
Petr Danecek | Added a note about the indels coordinates |
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2010-04-23 |
Petr Danecek | Added the possibility to print or not to print the... |
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2010-04-15 |
Petr Danecek | More descriptive message for space separated tags |
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2010-04-14 |
Petr Danecek | Speedup with -i, no need to query the reference all... |
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2010-03-15 |
Petr Danecek | Fixed the order of sequences in the header |
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2010-03-04 |
Petr Danecek | Added possibility to select indels only and fixed a... |
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2010-02-27 |
On behalf of... | Improve the invalid 'BAM\1' magic number error message... |
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2010-02-26 |
Petr Danecek | Improved efficiency of header parsing |
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2010-02-24 |
Heng Li | Updated export2sam.pl by Chris Saunders from Illumina. |
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2010-02-17 |
Petr Danecek | Fixed filtering of SNPs near indels. Added min indel... |
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2010-02-12 |
Petr Danecek | Print an error for pileups in simple format |
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2010-02-11 |
Heng Li | added a hidden option in pileup to output the base... |
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2010-02-09 |
Petr Danecek | Added possibility to specify a custom column title... |
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2010-02-09 |
Petr Danecek | Added the -d option to limit maximum depth for indels. |
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2010-02-03 |
Petr Danecek | Added VCF header |
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2010-02-01 |
Heng Li | * samtools-0.1.7-6 |
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2010-01-11 |
On behalf of... | Put the right filename in the error message. |
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2009-12-14 |
Heng Li | * samtools-0.1.7-5 (r528) |
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2009-12-11 |
Petr Danecek | Fixed a bug in knet_seek |
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2009-12-11 |
Petr Danecek | Small fix in VCF format: dot for the empty INFO field |
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2009-12-11 |
Petr Danecek | Allow tabs in the CO header field |
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2009-12-10 |
On behalf of... | Depend on libbam.a rather than the phony target, so... |
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2009-12-10 |
On behalf of... | Fix a bug in compiling bgzip: this also needs knetfile... |
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2009-12-01 |
Heng Li | * samtools-0.1.7-4 (r522) |
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2009-12-01 |
Heng Li | * samtools-0.1.7-3 (r521) |
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2009-12-01 |
Heng Li | * samtools-0.1.7-2 (r520) |
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2009-11-30 |
On behalf of... | Put libraries at the end, so they can resolve reference... |
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2009-11-30 |
On behalf of... | Also clean *.exe (for Cygwin users using this makefile). |
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2009-11-30 |
On behalf of... | Index files should be opened in binary mode, not text... |
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2009-11-27 |
Heng Li | another example program |
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2009-11-27 |
Heng Li | * samtools-0.1.7-1 (r515) |
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2009-11-24 |
On behalf of... | Format 'c'-encoded auxiliary fields correctly, as ... |
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