NAME

Bio::MUST::Apps::TwoScalp - Main class for two-scalp tool

VERSION

version 0.243240

SYNOPSIS

# get documentation
$ two-scalp.pl --man

# align unaligned sequences within provided example ALI file
$ two-scalp.pl test/PTHR22663.ali --out=-ts

DESCRIPTION

two-scapl.pl is an application to align or re-align sequences in existing multiple sequences alignments (FASTA or ALI file formats). Its main engine is BLAST https://blast.ncbi.nlm.nih.gov/.

Note that only alignable regions of the sequences are added to the alignment, which may lead to discarding low-conserved regions. Moreover, some sequences can generate multiple aligned fragments (BLAST HSPs). If you do not like this behavior, two-scalp.pl is not for you!

AUTHOR

Denis BAURAIN <denis.baurain@uliege.be>

COPYRIGHT AND LICENSE

This software is copyright (c) 2013 by University of Liege / Unit of Eukaryotic Phylogenomics / Denis BAURAIN.

This is free software; you can redistribute it and/or modify it under the same terms as the Perl 5 programming language system itself.