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R3
legacy
bedtools2
Commits
bedtools2
05 Jul, 2011
1 commit
included cstdlib in lineFileUtilities.h. Thanks to @daler
· 92fb9725
Aaron
authored
Jul 05, 2011
92fb9725
01 Jul, 2011
1 commit
Tweaks to Tokenize(), GetNextBed(), and detection of negative coordinates. Thanks to @agordon
· a3c8e94d
Aaron
authored
Jul 01, 2011
a3c8e94d
30 Jun, 2011
1 commit
15% speedup for the tokenizer.
· 59d77134
Aaron
authored
Jun 30, 2011
59d77134
29 Jun, 2011
8 commits
tweak to Fasta.cpp
· 45952e64
Aaron
authored
Jun 29, 2011
45952e64
Changed version number
· a764f2c7
Aaron
authored
Jun 29, 2011
a764f2c7
Updated help messages
· da8bf325
Aaron
authored
Jun 29, 2011
da8bf325
Updated Makefile for 64bit BAM seeks.
· b461fd71
Aaron
authored
Jun 29, 2011
b461fd71
Latest BamTools. Commit 525fc971414d7f7b8b60
· 26f4b896
Aaron
authored
Jun 29, 2011
26f4b896
Don't track BamTools/include
· 31708e4a
Aaron
authored
Jun 29, 2011
31708e4a
Cleanup of bamtools directories and updated Make
· 80c60e99
Aaron
authored
Jun 29, 2011
80c60e99
New region checks for multiBamCov. Thanks to Derek Barnett.
· 3001efad
Aaron
authored
Jun 28, 2011
3001efad
28 Jun, 2011
1 commit
Updated to 2.13.0.alpha
· 48f83463
Aaron
authored
Jun 28, 2011
48f83463
24 Jun, 2011
3 commits
User can define their own tag type for tagBam.
· 9fc914ad
Aaron
authored
Jun 24, 2011
9fc914ad
Moved FastaHack to the utils/ directory
· 5490e938
Aaron
authored
Jun 24, 2011
5490e938
Code gussying
· bb1b7cca
Aaron
authored
Jun 24, 2011
bb1b7cca
23 Jun, 2011
6 commits
Updated tagBam help so that it actually works...
· aef05843
Aaron
authored
Jun 23, 2011
aef05843
Added -f to tagBam.
· 7731f7f3
Aaron
authored
Jun 23, 2011
7731f7f3
Pushed tagBam to GitHub
· 0b3f2511
Aaron
authored
Jun 23, 2011
0b3f2511
Added -counts option to coverageBed to only collect the count of overlaps (no pct., etc.)
· 86d41f16
Aaron
authored
Jun 23, 2011
86d41f16
multiBamCov tweak
· 7983e339
Aaron
authored
Jun 22, 2011
7983e339
Added minQual (-q) and force proper pairs (-p) to multiBamCov.
· cc031ba9
Aaron
authored
Jun 22, 2011
cc031ba9
22 Jun, 2011
3 commits
Added BamTools object cleanup to the Makefile.
· d59bc405
Aaron
authored
Jun 22, 2011
d59bc405
Clean Bamtools objects
· 8825a154
Aaron
authored
Jun 22, 2011
8825a154
Tweaked Makefile and using GetNextAlignment() in multiBamCov.
· 743f05bd
Aaron
authored
Jun 22, 2011
743f05bd
17 Jun, 2011
16 commits
make Bamtools/lib on the fly
· 67ae0999
Aaron
authored
Jun 17, 2011
67ae0999
make Bamtools/lib on the fly
· 6cd47e25
Aaron
authored
Jun 17, 2011
6cd47e25
aded Bamtools/lib
· ee3864c8
Aaron
authored
Jun 17, 2011
ee3864c8
aded Bamtools/lib
· c9a2e73a
Aaron
authored
Jun 17, 2011
c9a2e73a
First cut at new multiBamCov tool. I like.
· d4448d67
Aaron
authored
Jun 17, 2011
d4448d67
Hooray, support for BamTools 1.0. Many good things to come.
· 773e1ae4
Aaron
authored
Jun 17, 2011
773e1ae4
specifically request unpadded and 1-based ends from GetEndCoordinate()
· 473c192c
Aaron
authored
Jun 17, 2011
473c192c
bamtools GetEndPosition() now defaults to unpadded, zero-based
· 4fcfbc85
Aaron
authored
Jun 17, 2011
4fcfbc85
Set BAM compression mode before opening
· a446d2fb
Aaron
authored
Jun 17, 2011
a446d2fb
removed multiBamCov from main Makefile
· ba585205
Aaron
authored
Jun 17, 2011
ba585205
intersect, window, and gcB support for bamtools1.0
· 9d651d34
Aaron
authored
Jun 17, 2011
9d651d34
coverageBed links with bamtools1.0
· 48c39f82
Aaron
authored
Jun 17, 2011
48c39f82
bedToBam links with bamtools1.0
· aa30e868
Aaron
authored
Jun 17, 2011
aa30e868
preliminary support for bamtools1.0 for bamToBed.
· 02f2ab59
Aaron
authored
Jun 17, 2011
02f2ab59
New BamTools 1.0 project structure and Makefile
· 92927729
Aaron
authored
Jun 17, 2011
92927729
Added BamTools-Ancillary files
· 4b5850cf
Aaron
authored
Jun 17, 2011
4b5850cf
