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Old 08-19-2013, 06:55 PM   #1
fay1313
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Location: China

Join Date: May 2013
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Default how to use the *.bam data to get the fasta file

Hi everyone,

I'm a beginner in RNA-seq analysis. I hope I would be able to get some help even though my question sounds very basic.

I wonder if there's any software that can convert *.bam or *.gtf format directly to the fasta file format.

I've searched the question but got nothing.

Thanks so much!!
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Old 08-19-2013, 09:30 PM   #2
arkilis
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There are some tools there, check this post.

http://seqanswers.com/forums/showthread.php?t=7061

And I like bamtool:
Bamtools (http://github.com/pezmaster31/bamtools)
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Old 08-19-2013, 11:09 PM   #3
fay1313
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Thanks, arkilis! I will check the usage of samtools and bamtools.
Thank you very much!
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