Difference between revisions of "Fabry:Sequence alignments (sequence searches and multiple alignments)/Journal"
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Rackersederj (talk | contribs) (→Blast) |
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<code>blastall -p blastp -d /mnt/project/pracstrucfunc12/data/big/big_80 -i P06280.fasta -m 0 -o blastsearch_default.out -v 700</code> |
<code>blastall -p blastp -d /mnt/project/pracstrucfunc12/data/big/big_80 -i P06280.fasta -m 0 -o blastsearch_default.out -v 700</code> |
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+ | The run took about 1.5 minutes[http://www.example.com link title]. |
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+ | ==== HHblits / HHsearch ==== |
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+ | We searched the "big80" database with HHblits with the following command: |
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+ | <code>hhblits -i ~/Desktop/P06280.fasta -d /mnt/project/pracstrucfunc12/data/hhblits/uniprot20_current -e 0.003 -o hhblits_default.out -E 0.003</code> |
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== Time == |
== Time == |
Revision as of 13:56, 24 April 2012
Sequence searches
Blast
We searched the "big80" database with Blast with the following command:
blastall -p blastp -d /mnt/project/pracstrucfunc12/data/big/big_80 -i P06280.fasta -m 0 -o blastsearch_default.out -v 700
The run took about 1.5 minuteslink title.
HHblits / HHsearch
We searched the "big80" database with HHblits with the following command:
hhblits -i ~/Desktop/P06280.fasta -d /mnt/project/pracstrucfunc12/data/hhblits/uniprot20_current -e 0.003 -o hhblits_default.out -E 0.003
Time
Method | Time |
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Blast v = 700 | 1m30.985s |
HHBlits default | 2m24.603s |