Question: How to read .bam file in Rsamtools R package?
1
gravatar for M K
6.4 years ago by
M K510
United States
M K510 wrote:

I have an accepted_hits.bam file which is from tophat  ouput, and I need to use Rsamtools "R package" to do some analysis for the .bam file. So any one know how to read this file in R.

R • 15k views
ADD COMMENTlink written 6.4 years ago by M K510
2
gravatar for Danielk
6.4 years ago by
Danielk600
Karolinska Institutet, Stockholm, Sweden
Danielk600 wrote:

Did you try the package vignette?

http://www.bioconductor.org/packages/2.13/bioc/vignettes/Rsamtools/inst/doc/Rsamtools-Overview.pdf

ADD COMMENTlink modified 9 months ago by RamRS30k • written 6.4 years ago by Danielk600

Hi Danielk, I used the Rsamtools package and I follow the the example in the pdf and it works. But I need to use my .bam file not the one provided in the pdf file. Also, I need to read all information in this file (not a portion).

ADD REPLYlink modified 9 months ago by RamRS30k • written 6.4 years ago by M K510
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