FastA.slider.pl
Slices sequences in fixed- or variable-length windows.
See source code, Artistic license 2.0.
§ References
Rodriguez-R & Konstantinidis, 2016, PeerJ Preprints.
§ Requirements
- Perl.
§ Usage
FastA.slider.pl -seq in_file -out out_file [opts]
§ Arguments
- Seq*
-seq in_file
Input file in FastA format.- Out*
-out out_file
Output file in FastA format.- Win
-win integer
Window size.- Step
-step integer
Step size.- Length error
-lerr integer
Expected error in chunks length.- Comm
-comm select
Generate FastA comments (leaded by semi-colon) to separate input sequences. Set to 0 for no-comments, to 1 for comments.- Short
-short select
Use chunks shorter than the window size 'as is'. Set to 0 to discard those chunks, to 1 to use them.