cytos v1.2.0
>
cytos
msa
concat
Command
v1.0.0
Concatenate multiple alignments into one alignment.
cytos msa concat
[OPTIONS] <OUTPUT> [INPUT]...
v1.1.0 - A bugfix has been released to address the unordered input and unsorted genome ID outputs.
Parameters
Options
--gap
v1.1.0
Missing character separator.
Default value: -
Positional arguments
<OUTPUT>
v1.0.0
Write the concatenated FASTA file to this path.
[INPUT]...
v1.0.0
Space-separated list of FASTA files to concatenate (this will form the order).
Example
The following example takes two FASTA files
gene_a.fa
and
gene_b.fa
, then concatenates them into
output.fa
.
cytos msa concat
--gap - output.fa gene_a.fa gene_b.fa
gene_a.fa
>bar
CCC
>baz
TTT
gene_b.fa
>bar
TTTT
>baz
--GG
>foo
AAA-
output.fa
>bar
CCCTTTT
>baz
TTT--GG
>foo
---AAA-