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Wikiomics:BLAST tutorial: Difference between revisions
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→Filters and Masking
Darek Kedra (talk | contribs) m (→CS-BLAST) |
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* custom filtering (lower case masking) | * custom filtering (lower case masking) | ||
By providing query sequence i.e. genomic sequence with '''EXONS''' as capitals and '''introns''' in small letters we can search exonic sequences only. | By providing query sequence i.e. genomic sequence with '''EXONS''' as capitals and '''introns''' in small letters we can search exonic sequences only. | ||
==Filtering blast output using Entrez query== | |||
One can be interested only in blast hits from i.e. specific organism. On a command line: | |||
<pre> | |||
blastall -u "[Arabidopsis thaliana[organism]" -p blastp -d nr -i my_protein_input.fas -o my_protein_input_vs_nr_Athaliana.blastout.txt | |||
</pre> | |||
=BLAST implementations= | =BLAST implementations= | ||
