Question

generate .bai files in windows system

2

Entering edit mode

9.4 years ago

Kizuna ▴ 870

Hi Biostars users,

I used to work with samtools installed on my mac in order to generate the .bai files. For some complicated reasons, I have currently an access only to a windows system. Do you have any idea on how I might generate .bai file on a windows pc?

Many thanks in advance,

Best

Kiz

alignment next-gen-sequencing • 3.4k views

ADD COMMENT • link updated 2.1 years ago by Ram 43k • written 9.4 years ago by Kizuna ▴ 870

1

Entering edit mode

indexBam() in Rsamtools just worked fine!

ADD REPLY • link updated 2.1 years ago by Ram 43k • written 9.4 years ago by Kizuna ▴ 870

Ram · Answer 1 · 2014-12-01

0

Entering edit mode

9.4 years ago

Ashutosh Pandey 12k

If windows is your only option you can try http://bow.codeplex.com/releases/view/87911. I have never tried it. I just googled and found it.

ADD COMMENT • link updated 2.1 years ago by Ram 43k • written 9.4 years ago by Ashutosh Pandey 12k

0

Entering edit mode

Did you ever try the asBam() or indexBam() of Rsamtools?

ADD REPLY • link updated 2.1 years ago by Ram 43k • written 9.4 years ago by Kizuna ▴ 870