2012-03-22 |
peterjc | Helpful error message on bad CIGAR in unpad_seq |
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2012-03-20 |
Heng Li | bugfix: downsampling not always working |
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2012-03-09 |
Heng Li | On behalf of Petr: multi-allelic GT |
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2012-03-09 |
Heng Li | Removed SVN ChangeLog; merged my private github Log... |
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2012-03-09 |
Heng Li | doc for downsampling |
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2012-03-09 |
Heng Li | another example, used by g1k for QA |
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2012-03-09 |
Heng Li | Two auxilary Lua scripts |
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2012-03-09 |
Heng Li | Incoporated changes from Nils Homer. |
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2012-02-16 |
Heng Li | bugfix: wrong SP; missing DV in the VCF header |
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2012-02-08 |
Heng Li | changes from git |
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2011-09-28 |
Heng Li | unpadded output |
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2011-09-23 |
Heng Li | added the ace2sam converter |
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2011-09-23 |
Heng Li | converted padded SAM to unpadded SAM |
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2011-09-02 |
Heng Li | * Updated samtools to the latest |
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2011-08-17 |
Heng Li | * bugfix in index: large memory when a read pos is 1 |
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2011-07-15 |
Heng Li | allow to set seed in view-subsampling |
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2011-07-15 |
Heng Li | subsampling read pairs |
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2011-07-13 |
Heng Li | support trio indels |
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2011-07-07 |
Heng Li | for WIN32 compatibility |
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2011-07-07 |
Heng Li | fixed a bug in bam_plcmd.c |
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2011-07-07 |
Heng Li | Release samtools-0.1.17 |
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2011-06-15 |
Heng Li | fixed a bug caused by a recent patch |
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2011-06-03 |
Heng Li | * 0.1.16-dev (r969:252) |
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2011-04-22 |
Heng Li | Removed the pileup command |
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2011-04-22 |
Heng Li | Release samtools-0.1.16 (r963:234) |
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2011-04-21 |
Heng Li | fixed a bug in merge |
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2011-04-18 |
Heng Li | Added the support for the new SAM/BAM type "B" |
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2011-04-17 |
Heng Li | * fixed a bug in bedidx: input BED not sorted |
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2011-04-15 |
Heng Li | * Added Brent's method for frequency estimate |
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2011-04-10 |
Heng Li | Release samtools-0.1.15 (r949:203) |
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2011-04-08 |
Heng Li | * added bam_verbose global variable |
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2011-04-01 |
Heng Li | added quality filtering |
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2011-04-01 |
Heng Li | fixed a few typos in comments |
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2011-04-01 |
Heng Li | Added an example of using mpileup |
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2011-03-31 |
Heng Li | * synchronize bgzf in tabix and in samtools |
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2011-03-30 |
Heng Li | * added BED support to samtools view and mpileup and... |
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2011-03-22 |
Heng Li | Release samtools-0.1.14 (r933:170) |
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2011-03-18 |
Heng Li | forget to add this file |
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2011-03-18 |
Heng Li | * allow to change the compression level in BAM output |
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2011-03-18 |
Heng Li | export2sam.pl-2.3.1, provided by Chris Saunders from... |
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2011-03-08 |
Heng Li | added the haploid mode |
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2011-03-01 |
Heng Li | Release samtools-0.1.13 (r926:134) |
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2011-03-01 |
Heng Li | * optionally drop phase ambiguous reads |
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2011-02-28 |
Heng Li | minor changes to a heuristic rule |
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2011-02-28 |
Heng Li | * 0.1.12-r924:126 |
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2011-02-28 |
Heng Li | * put version number in bam.h |
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2011-02-25 |
Heng Li | * change the order of PL/GL according to the latest... |
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2011-02-25 |
Heng Li | update the BCF spec |
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2011-02-25 |
Heng Li | added the phase command |
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2011-02-24 |
Heng Li | added "const" to bcf_p1_cal() |
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2011-02-24 |
Heng Li | more meaningful BAM truncation message |
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2011-02-24 |
Heng Li | * automatically fix errors in GL |
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2011-02-11 |
Heng Li | finished VCF->BCF conversion |
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2011-02-03 |
Petr Danecek | Prevent division by zero |
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2011-02-02 |
Heng Li | fixed a typo in the VCF header |
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2011-02-02 |
Heng Li | * fixed an out-of-boundary bug |
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2011-01-30 |
Heng Li | * avoid a segfault when network connect fails |
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2011-01-27 |
Heng Li | * fixed a rare memory issue in bam_md.c |
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2011-01-24 |
Heng Li | fixed two minor bugs in Fisher's exact test |
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2011-01-19 |
Petr Danecek | Skip sites with unknown ref |
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2011-01-15 |
Heng Li | move bam_nt16_nt4_table[] from bam_maqcns.c to bam_md.c |
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2011-01-06 |
Heng Li | * samtools-0.1.12-10 (r896) |
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2011-01-04 |
Heng Li | sorry. It is SP not ST |
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2011-01-04 |
Heng Li | added ST |
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2011-01-04 |
Petr Danecek | Fixed a typo in read_samples |
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2010-12-28 |
On behalf of... | System libraries go *after* user libraries in link... |
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2010-12-21 |
Heng Li | * samtools-0.1.12-9 (r891) |
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2010-12-15 |
Heng Li | * samtools-0.1.12-12 (r889) |
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2010-12-15 |
Heng Li | When -B is applied to mpileup, still use paired reads... |
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2010-12-15 |
Heng Li | * samtools-0.1.12-6 (r887) |
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2010-12-14 |
Heng Li | (Arguably) improved the indel caller a tiny bit for... |
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2010-12-14 |
Petr Danecek | Fixed the VCF header to pass validation |
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2010-12-13 |
Heng Li | * samtools-0.1.12-4 (r884) |
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2010-12-12 |
Heng Li | compute max SP and max GQ from sample genotypes |
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2010-12-10 |
Heng Li | drop bcf-fix.pl as it is redundant by the latest changes |
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2010-12-10 |
Heng Li | * fixed a minor issue in printing VCFs |
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2010-12-10 |
Heng Li | Make sure that the GT genotype field is the first |
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2010-12-08 |
Heng Li | * samtools-0.1.12-2 (r877) |
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2010-12-08 |
Heng Li | a spelling error.. |
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2010-12-08 |
Heng Li | * samtools-0.1.12-1 (r873) |
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2010-12-07 |
Heng Li | fixed a bug in vcf2fq |
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2010-12-05 |
Heng Li | added a warning for the Windows version |
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2010-12-05 |
Heng Li | In ksprintf(), change "%lf" and "%lg" to "%f" and ... |
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2010-12-05 |
Heng Li | bring back the windows support |
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2010-12-05 |
Heng Li | Fixed a compiling error when knetfile is not used. |
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2010-12-04 |
Heng Li | vcf->fastq |
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2010-12-03 |
Heng Li | * remove "-f". Instead always compute consensus quality |
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2010-12-03 |
Heng Li | more informative error message |
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2010-12-02 |
Heng Li | Release samtools-0.1.12a |
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2010-12-02 |
Heng Li | a possible fix to DP4=0,0,0,0; have not tested, but... |
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2010-12-02 |
Heng Li | Release samtools-0.1.12 |
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2010-12-02 |
Heng Li | * samtools-0.1.11-1 (r858) |
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2010-12-01 |
Heng Li | fixed a memory leak in bam_fetch() |
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2010-11-26 |
Heng Li | * fixed a memory violation |
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2010-11-23 |
Heng Li | fixed a typo/bug in r^2 computation |
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2010-11-22 |
Heng Li | forget to change the version information |
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2010-11-22 |
Heng Li | Release samtools-0.1.11 |
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2010-11-20 |
Heng Li | * samtools-0.1.10-9 (r844) |
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2010-11-20 |
Heng Li | In merging, if -R is specified, do not abort if the... |
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2010-11-20 |
On behalf of... | When merging BAM headers, compare the list of target... |
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