App::Fasops - operating blocked fasta files
fasops <command> [-?h] [long options...]
-? -h --help show help
Available commands:
commands: list the application's commands
help: display a command's help screen
axt2fas: convert axt to blocked fasta
check: check genome locations in (blocked) fasta headers
concat: concatenate sequence pieces in blocked fasta files
covers: scan blocked fasta files and output covers on chromosomes
join: join multiple blocked fasta files by common target
links: scan blocked fasta files and output bi/multi-lateral range links
maf2fas: convert maf to blocked fasta
names: scan blocked fasta files and output all species names
refine: realign blocked fasta file with external programs
replace: replace headers from a blocked fasta
separate: separate blocked fasta files by species
slice: extract alignment slices from a blocked fasta
split: split blocked fasta files to separate per-alignment files
subset: extract a subset of species from a blocked fasta
xlsx: paint substitutions and indels to an excel file
See fasops commands for usage information.
Qiang Wang <[email protected]>
This software is copyright (c) 2014 by Qiang Wang.
This is free software; you can redistribute it and/or modify it under the same terms as the Perl 5 programming language system itself.