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dsturg / Spanki

Splicing analysis toolkit for RNA-SEQ
http://www.cbcb.umd.edu/software/spanki/
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Error message parsing Fasta file #2

Open gouthamatla opened 9 years ago

gouthamatla commented 9 years ago

One bug I noticed recently was, if the sequence name in reference fasta is something like * >chr1 length=xxxx * , tophat places it as chr1 in the bam file, but spanki is trying to look for entire name instead of trimmed name.

dsturg commented 9 years ago

Thanks! That seems like something that wouldn't be too hard to fix.

On Sat, Apr 4, 2015 at 12:13 PM, Goutham notifications@github.com wrote:

One bug I noticed recently was, if the sequence name in reference fasta is something like * >chr1 length=xxxx * , tophat places it as chr1 in the bam file, but spanki is trying to look for entire name instead of trimmed name.

— Reply to this email directly or view it on GitHub https://github.com/dsturg/Spanki/issues/2.