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R3
legacy
bedtools2
Commits
bcffe1009905e1211be0003581603d99bcf635ac
Switch branch/tag
bedtools2
30 Dec, 2011
3 commits
Added groupby back into the bedtools package.
· bcffe100
Aaron
authored
Dec 30, 2011
bcffe100
added cluster tool. both cluster and merge require sorted files for efficiency.
· 761d4a58
Aaron
authored
Dec 30, 2011
761d4a58
Relax pairing req's for bamtobed and pairtobed
· c045c254
Aaron
authored
Dec 29, 2011
c045c254
29 Dec, 2011
5 commits
Missing include.
· 4f74da50
Aaron
authored
Dec 29, 2011
4f74da50
added version to subcommands
· f8d62267
Aaron
authored
Dec 29, 2011
f8d62267
Warn only when requested chrom not in FASTA file.
· 53feac20
Aaron
authored
Dec 29, 2011
53feac20
Added makewindows sub-command
· fbb65994
Aaron
authored
Dec 29, 2011
fbb65994
Handle mutiple UCSC header lines and mid-file headers/comments.
· 350cb3ff
Aaron
authored
Dec 29, 2011
350cb3ff
21 Dec, 2011
1 commit
uBG and mIB use new Point class.
· 8850247c
Aaron
authored
Dec 21, 2011
8850247c
18 Dec, 2011
5 commits
Change shuffleBed defaults.
· bdea2f1d
Aaron
authored
Dec 17, 2011
bdea2f1d
Makefile mod.
· 741c5f9e
Aaron
authored
Dec 17, 2011
741c5f9e
updated to bamtools 2.0
· f029b236
Aaron
authored
Dec 17, 2011
f029b236
wipe away bamtools
· 63ebf2c6
Aaron
authored
Dec 17, 2011
63ebf2c6
shuffleBed now weights by chrom size by def.
· 956dc0f3
Aaron
authored
Dec 17, 2011
956dc0f3
13 Dec, 2011
12 commits
banner, include.
· 166bee78
Aaron
authored
Dec 13, 2011
166bee78
newline at end of file
· 66e0b8d6
Aaron
authored
Dec 13, 2011
66e0b8d6
Improvements to CLI.
· d71acebe
Aaron
authored
Dec 13, 2011
d71acebe
fix
· 80f127bb
Aaron
authored
Dec 13, 2011
80f127bb
Uses C++ string comp. Thx to @jmarshall.
· e55f9ecc
Aaron
authored
Dec 13, 2011
e55f9ecc
to for compat. thx to @jmarshall
· 6dfec964
Aaron
authored
Dec 13, 2011
6dfec964
remove superfluous *.o
· d8a9ae92
Aaron
authored
Dec 13, 2011
d8a9ae92
remove superfluous *.o
· 03e0a08e
Aaron
authored
Dec 13, 2011
03e0a08e
gussy
· 7ce88623
Aaron
authored
Dec 12, 2011
7ce88623
gussy
· 5c7d55bc
Aaron
authored
Dec 12, 2011
5c7d55bc
gussy
· 833f165a
Aaron
authored
Dec 12, 2011
833f165a
acknowledge heng li.
· bd34e000
Aaron
authored
Dec 12, 2011
bd34e000
12 Dec, 2011
5 commits
tweaked menu.
· 4fe3ea9f
Aaron
authored
Dec 12, 2011
4fe3ea9f
tweaked menu.
· c46b9d4c
Aaron
authored
Dec 12, 2011
c46b9d4c
New svn/git/samtools - like bedtools interface.
· d615e94a
Aaron
authored
Dec 12, 2011
d615e94a
Removed most version.h includes from sub-tools.
· b7cb9955
Aaron
authored
Dec 12, 2011
b7cb9955
First pass at new, consolidated CLI.
· c2c28746
Aaron
authored
Dec 12, 2011
c2c28746
08 Dec, 2011
9 commits
preliminary
· 0ef7f2dd
Aaron
authored
Dec 08, 2011
0ef7f2dd
makefile tweak
· f98028d5
Aaron
authored
Dec 08, 2011
f98028d5
Comment fix.
· 9dda8b7f
Aaron
authored
Dec 08, 2011
9dda8b7f
Further nullBed tweaking.
· 5c3d96db
Aaron
authored
Dec 08, 2011
5c3d96db
return true on BLANK
· 600a99ca
Aaron
authored
Dec 08, 2011
600a99ca
Removed nullBed nonsense.
· 4406c1ef
Aaron
authored
Dec 08, 2011
4406c1ef
bamToBed -bedpe now handles singletons.
· b3ba4b98
Aaron
authored
Dec 08, 2011
b3ba4b98
Removed need for nullBed. clear() otherFields in GetNextBed().
· 77dbc361
Aaron
authored
Dec 07, 2011
77dbc361
Added -header to sortBed
· e8909692
Aaron
authored
Dec 07, 2011
e8909692
