Question

What Are Recommend Approaches For Studying Bacterial Rna-Seq Data

1

Entering edit mode

11.1 years ago

Honey ▴ 200

I have a data from Hi-seq for a bacterial RNA-seq , however, it is an over kill, with any aligner it gives ma around >1GB data no mismatch. What may be the best strategy to analyze such data? I think if I take a fraction of the data that may be useful but I dont know how I can take fraction of aligned reads from Bam file? Any suggestion please?

rna-seq bacteria • 2.4k views

ADD COMMENT • link updated 11.1 years ago by Istvan Albert 100k • written 11.1 years ago by Honey ▴ 200

1

Entering edit mode

Sorry, I don't understand the question. Can you clarify what you mean by "around >1GB data no mismatch"?

ADD REPLY • link 11.1 years ago by Mikael Huss 4.8k

0

Entering edit mode

Agree with Mikael, please clarify.

ADD REPLY • link 11.1 years ago by Michael 54k

score 1 · Answer 1 · 2013-03-23

1

Entering edit mode

11.1 years ago

luwening ▴ 10

sample was contaminated?

blast with unmatched reads to see where may these come from

ADD COMMENT • link 11.1 years ago by luwening ▴ 10