User: dukecomeback

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dukecomeback40
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New User
Location:
China
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1 day, 8 hours ago
Joined:
4 years, 7 months ago
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d***********@gmail.com

Posts by dukecomeback

<prev • 35 results • page 1 of 4 • next >
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Answer: A: Automagically Remove "Badly" Aligning Sequence From Multiple-Sequence Alignment
... https://github.com/dukecomeback/bad-sequence-remover ...
written 9 weeks ago by dukecomeback40
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Comment: C: GMAP error - Problem Sequence: TRINITY_DN422143_c0_g1_i1 (301 bp)
... I'm not so sure if it has something to do with the header of the fasta sequences. Keeping the header of sequences in simple characters maybe help. ...
written 3 months ago by dukecomeback40
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Answer: A: augustus output - how is the incompatible hint groups determined?
... I'm a little disappointed with Augustus, some times I know the hint is corrected, however no matter how hard I try, Augustus just do not obey the hint. Feel won't love anymore. ...
written 3 months ago by dukecomeback40
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Comment: C: Amino Acid matrices freely downloadable url
... Hi, I'm quiet new to evolution, do you know why there is so many version of Jones matrices there? Thank you very much. ...
written 4 months ago by dukecomeback40
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Comment: C: GMAP error - Problem Sequence: TRINITY_DN422143_c0_g1_i1 (301 bp)
... Dear TrentGenomics, have you solved this? I'm also stucked here ...
written 10 months ago by dukecomeback40
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Answer: A: exonerate error while building index
... I think I've figure this out. It because that the sequences in the fasta file are output in one line. Some are too long for the exonerate. Here is a perl script to re-type the fasta so each sequence would be output in multiple lines #!/usr/bin/perl -w use strict; use Getopt::Long; m ...
written 13 months ago by dukecomeback40
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Comment: C: exonerate error while building index
... I also run into this problem, don't know if you've figured it our? ...
written 13 months ago by dukecomeback40
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Is the score from genewise and exonerate normalized by protein length?
... Hi, I want to cutoff the results by scores, but I hope there would be no length bias. ...
alignment written 22 months ago by dukecomeback40 • updated 22 months ago by Jean-Karim Heriche18k
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** FATAL ERROR **: Unknown amino acid [U] exiting ... in Exonerate
... Hi there, When I run exonerate, I come across to this error: ** FATAL ERROR **: Unknown amino acid [U] exiting ... Google lead me to this: https://github.com/nathanweeks/exonerate/issues/5, but the version I'm using (2.4.0) is supposed to be bug-fixed. So this link won't help me. Do you have any ...
software error genome alignment written 22 months ago by dukecomeback40
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Comment: C: combine or split, that's a question for transcriptome assembly
... I'm actually trying to build a genome annotation pipeline here. I hope to extract the overlap part from the two process to get some high quality genes. ...
written 24 months ago by dukecomeback40

Latest awards to dukecomeback

Popular Question 3 months ago, created a question with more than 1,000 views. For look for the old version blast (not blast+)
Popular Question 10 months ago, created a question with more than 1,000 views. For what is pairwise dN/dS used for?

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