Commits

Branch selector

 develop

User selector

All users

Datepicker

All time

Commit History

Commits on Aug 15, 2018

• Fix the short options list, by removing the non-existent `-1`,

  Show description for 74ecbcb
  valeriuo

  committed
  74ecbcb

  Copy full SHA for 74ecbcb

• Changed a memory check to catch buffer overflow.

  Show description for f974d2e
  

  whitwham

  authored and

  valeriuo

  committed
  f974d2e

  Copy full SHA for f974d2e

• Maintaing stats output format

  Show description for c03ee41
  

  betteridiot

  authored and

  daviesrob

  committed
  c03ee41

  Copy full SHA for c03ee41

Commits on Aug 14, 2018

• Add option to quickcheck to allow unmapped data

  Show description for f9a74b8
  

  mcshane

  authored and

  daviesrob

  committed
  f9a74b8

  Copy full SHA for f9a74b8

• Added 'CHK' tolerance

  Show description for 9f26251
  betteridiot

  authored
  9f26251

  Copy full SHA for 9f26251

• Spelling correction

  Show description for 930bb5a
  betteridiot

  authored
  930bb5a

  Copy full SHA for 930bb5a

• Document fastq/fasta default compression level.

  Show description for a8642fb
  

  jkbonfield

  authored and

  daviesrob

  committed
  a8642fb

  Copy full SHA for a8642fb

• Make samtools fastq/fasta compressed output threadable.

  Show description for 3c181ad
  

  jkbonfield

  authored and

  daviesrob

  committed
  3c181ad

  Copy full SHA for 3c181ad

• Fix typo in samtools faidx/fqidx documentation

  Show description for ba67046
  

  juliangehring

  authored and

  daviesrob

  committed
  ba67046

  Copy full SHA for ba67046

Commits on Aug 13, 2018

• Update inputs for `reheader --in-place` docstring

  Show description for e5331f6
  juliangehring

  authored
  e5331f6

  Copy full SHA for e5331f6

Commits on Aug 10, 2018

• Merge pull request #913 from ryanrichholt/develop

  Show description for 312adab
  whitwham

  authored
  312adab

  Copy full SHA for 312adab

Commits on Aug 9, 2018

• Add documentation for stats options:

  Show description for 4651d25
  valeriuo

  committed
  4651d25

  Copy full SHA for 4651d25

• Add the default values in the help message for options:

  Show description for 29e0fa1
  valeriuo

  committed
  29e0fa1

  Copy full SHA for 29e0fa1

Commits on Aug 7, 2018

• Markdup stats are easier to parse (valid YAML)

  ryanrichholt

  authored
  53f574c

  Copy full SHA for 53f574c

Commits on Aug 3, 2018

• Clarify decode_md meaning

  

  EvanTheB

  authored and

  daviesrob

  committed
  ae1f9d8

  Copy full SHA for ae1f9d8

• Base composition statistics for bar codes.

  Show description for b118214
  

  valeriuo

  authored and

  jkbonfield

  committed
  b118214

  Copy full SHA for b118214

Commits on Jul 30, 2018

• Add checks on return value of bam_hdr_write, bam_write1

  Show description for 02d93a1
  

  daviesrob

  authored and

  jkbonfield

  committed
  02d93a1

  Copy full SHA for 02d93a1

Commits on Jul 18, 2018

• Merge version number bump and NEWS file from master

  daviesrob

  committed
  93bc9aa

  Copy full SHA for 93bc9aa

• Release 1.9

  daviesrob

  committed
  b24d812

  Copy full SHA for b24d812

Commits on Jul 17, 2018

• Add note about view -r/-R outputting reads with no RG tag

  daviesrob

  committed
  4da22a9

  Copy full SHA for 4da22a9

Commits on Jul 13, 2018

• NEWS update

  daviesrob

  committed
  0a6387f

  Copy full SHA for 0a6387f

Commits on Jul 12, 2018

• Additional installation hints for dependencies.

  Show description for a340d29
  daviesrob

  committed
  a340d29

  Copy full SHA for a340d29

• Fix trivial buffer-read overrun in mpileup / depth.

  Show description for cc47dd0
  

  jkbonfield

  authored and

  daviesrob

  committed
  cc47dd0

  Copy full SHA for cc47dd0

Commits on Jul 9, 2018

• Removal of trailing white space in man page.

  jkbonfield

  committed
  60138c4

  Copy full SHA for 60138c4

• Try to make what the fasta and fastq output options clearer

  Show description for 1968041
  

  daviesrob

  authored and

  jkbonfield

  committed
  1968041

  Copy full SHA for 1968041

Commits on Jul 5, 2018

• Update date range in LICENSE file

  daviesrob

  committed
  3ee9eb6

  Copy full SHA for 3ee9eb6

• Update / add bedidx.[ch] copyright boilerplate.

  daviesrob

  committed
  59e644f

  Copy full SHA for 59e644f

• Add missing Makefile dependencies

  Show description for 5fcf46b
  jmarshall

  committed
  5fcf46b

  Copy full SHA for 5fcf46b

Commits on Jul 2, 2018

• Add information on building with plug-ins enabled back into README

  Show description for 18bbf0e
  daviesrob

  committed
  18bbf0e

  Copy full SHA for 18bbf0e

• NEWS updates

  daviesrob

  committed
  6f07027

  Copy full SHA for 6f07027

Commits on Jun 28, 2018

• Make /rc the default faidx/fqidx --mark-strand option

  Show description for 2834872
  daviesrob

  committed
  2834872

  Copy full SHA for 2834872

• Remove trailing whitespace and fix test.pl perl warning

  daviesrob

  committed
  107ccba

  Copy full SHA for 107ccba

• Add faidx option to annotate sequence names with strand

  Show description for 333cbec
  daviesrob

  committed
  333cbec

  Copy full SHA for 333cbec

• Add a reverse complement option to faidx.

  

  whitwham

  authored and

  daviesrob

  committed
  f2645d3

  Copy full SHA for f2645d3

Commits on Jun 27, 2018

• Improve description of BAQ in the manual page

  daviesrob

  committed
  2c936fb

  Copy full SHA for 2c936fb

Pagination

Previous

Next