Man page - kalignfmt(1)

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Package: kalign
apt-get install kalign

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kalign

Manual

KALIGNFMT

NAME
SYNOPSIS
DESCRIPTION
OPTIONS
EXAMPLES
COPYRIGHT
Please cite:

NAME

kalignfmt - Global and progressive multiple sequence alignment

SYNOPSIS

kalignfmt-avx2 -i <seq file> -o <out aln>

DESCRIPTION

Kalign (3.3.4)

OPTIONS

--format

: Output format. [Fasta]

--reformat

: Reformat existing alignment. [NA]

--changename

: Change sequence names to 1 .. N. [NA]

--unalign

: Remove gaps and write to fasta. [NA]

--clean

: Perform additional checks on alignment. [NA]

--version ( -V /-v)

: Prints version. [NA]

EXAMPLES

Passing sequences via stdin:

cat input.fa | kalign -f fasta > out.afa

Combining multiple input files:

kalign seqsA.fa seqsB.fa seqsC.fa -f fasta > combined.afa

COPYRIGHT

This program comes with ABSOLUTELY NO WARRANTY; for details type: ‘kalign -showw ’.
This is free software, and you are welcome to redistribute it under certain conditions; consult the COPYING file for details.

Please cite:

Lassmann, Timo. "Kalign 3: multiple sequence alignment of large data sets." Bioinformatics (2019) https://doi.org/10.1093/bioinformatics/btz795