[BioC] Depth of Coverage and Base counts from BAM file
Chandu [guest]
guest at bioconductor.org
Thu Aug 29 09:58:07 CEST 2013
Hi ALL,
Given BAM file, I like to get output something like below. Any ideas?
Chr Position DepthOfCoverage BaseCounts
chr1 14112 14 A:0 C:0 G:0 T:14 N:0
chr1 14113 13 A:0 C:13 G:0 T:0 N:0
chr1 14114 11 A:0 C:0 G:0 T:11 N:0
chr1 14115 11 A:10 C:0 G:0 T:1 N:0
Many thanks in advance.
Best Regards
Chandu
-- output of sessionInfo():
R version 3.0.0 (2013-04-03)
Platform: x86_64-apple-darwin10.8.0 (64-bit)
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
--
Sent via the guest posting facility at bioconductor.org.
More information about the Bioconductor
mailing list