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BP_SEQRET(1) User Contributed Perl Documentation BP_SEQRET(1)
NAME
bp_seqret - bioperl implementation of sequence fetch from local db
(like EMBOSS seqret)
USAGE
bp_seqret [-f/--format outputformat] [-o/--out/--outfile outfile]
[-d/--db dbname] [-i/--id/-s/--seqname seqname1]
Example usage:
bp_seqret -f fasta -db db.fa -i seq1 -i seq2 > output.fas
bp_seqret db.fa:seq1 output.fas
bp_seqret db.fa:seq1 -o output.fas
bp_seqret -db db.fa -o output.fas seq1 seq2 seq3
bp_seqret -db db.fa seq1 seq2 seq3 output.fas
bp_seqret -db db.fa seq1 seq2 seq3 - > output.fas
The DB is expected to be a Fasta formatted sequence file with multiple
sequences.
Output format is Fasta by default.
If no output filename is provided then output is written to STDOUT.
Providing '-' as the output filename will accomplish the same thing.
AUTHOR
Jason Stajich jason_AT_bioperl-dot-org
perl v5.20.2 2015-09-15 BP_SEQRET(1)
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