Hello Fahim,
I would suggest ensuring that your transformations of the files
didn't accidentally change them to not follow PSL format rules. A clean
concatenation should leave you with a working PSL file. If you find that
this isn't the case, please send us your error message (along with some
sample lines from your file if you feel comfortable doing that) so we
can have a better sense of what might be wrong.
I hope this helps. Please contact us again if your problems persists, or
if you have other inquiries.
Best
Antonio Coelho
UCSC Genome Bioinformatics Group
----- Original Message -----
From: "Fahim Md" <[email protected]>
To: [email protected], [email protected]
Sent: Monday, June 28, 2010 2:26:22 PM GMT -08:00 US/Canada Pacific
Subject: [Genome] pslReps help
I am using pslReps executable which I downloaded as part of pslUtils from
Kent's website for analyzing repeats and generating genome wide best
alignments.
Since the size of psl files are huge, I generated those psl files with
-noHead option and then used sort in linux to generate a single file which
is now in tab delimited format
Now, I want to apply pslReps function on this file. since pslReps are not in
psl format, it is giving me error. Is there any way through which I can use
pslReps on this file.
Thanks and regards.
-Fahim
Bioinformatics Lab
University of Louisville
Louisville, KY - 40217
502-409-1167
_______________________________________________
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https://lists.soe.ucsc.edu/mailman/listinfo/genome
_______________________________________________
Genome maillist - [email protected]
https://lists.soe.ucsc.edu/mailman/listinfo/genome
