tofasta
Usage: recs-tofasta <options> [files] Outputs a FASTA-formatted sequence for each record. By default the keys "id", "description", and "sequence" are used to build the FASTA format. These defaults match up with what recs-fromfasta produces. The special key name "NONE" may be used to indicate that no key should be used, disabling the defaults. Note that specifying NONE for --id will cause any -- description to appear with a space between it and the line's ">", unless -- passthru is also used. Arguments: --id|-i <keyspec> Record field to use for the sequence id --description|-d <keyspec> Record field to use for the sequence description --sequence|-s <keyspec> Record field to use for the sequence itself --width|w <#> Format sequence blocks to # characters wide --oneline Format sequences on a single long line --passthru Pass through nucleotides unformatted --filename-key|fk <keyspec> Add a key with the source filename (if no filename is applicable will put NONE) Help Options: --help-all Output all help for this script --help This help screen --help-keys Help on keygroups and keyspecs --help-keyspecs Help on keyspecs, a way to index deeply and with regexes Examples: # Remove gaps from a fasta file recs-fromfasta seqs.fa | recs-xform '{{sequence}} =~ s/-//g' | recs-tofasta > seqs-nogaps.fa
App::RecordStream::Bio
To install App::RecordStream::Bio, copy and paste the appropriate command in to your terminal.
cpanm
cpanm App::RecordStream::Bio
CPAN shell
perl -MCPAN -e shell install App::RecordStream::Bio
For more information on module installation, please visit the detailed CPAN module installation guide.