fa_rename

Supports reading and writing sequences for different formats (currently interleaved and sequential formats for 'FASTA' and 'PHYLIP'), file conversion, and manipulation (e.g. filter sequences that contain specify pattern, export consensus sequence from an alignment).

Guangchuang Yu

seqmagick

Sequence Manipulation Utilities

fa_rename function

<dl><dt>fasfile</dt>
<dd>fasta file</dd>
<dt>mapping_file</dt>
<dd>mapping file</dd>
<dt>position</dt>
<dd>rename token at specific position</dd>
<dt>sep</dt>
<dd>sepator to divide token</dd>
<dt>mode</dt>
<dd>one of 'replace', 'prefix' or 'suffix'</dd>
<dt>outfile</dt>
<dd>output file</dd></dl>

Arguments

Author

fa_rename — fa_rename

<dl>

<dt>fasfile</dt>
<dd>fasta file</dd>


<dt>mapping_file</dt>
<dd>mapping file</dd>


<dt>position</dt>
<dd>rename token at specific position</dd>


<dt>sep</dt>
<dd>sepator to divide token</dd>


<dt>mode</dt>
<dd>one of 'replace', 'prefix' or 'suffix'</dd>


<dt>outfile</dt>
<dd>output file</dd>

</dl>

fa_rename: fa_rename

Description

Usage

Value

Arguments

Author