FilterSeq.py1
Filters sequences in fasta/fastq files
Overview
usage: FilterSeq.py [--version] [-h] ...
Filters sequences in FASTA/FASTQ files
help:
-
--version -
show program's version number and exit
-
-h, --help -
show this help message and exit
subcommands:
|
Filtering operation |
|
length
|
Filters reads by length. |
missing
|
Filters reads by N or gap character count. |
repeats
|
Filters reads by consecutive nucleotide repeats. |
quality
|
Filters reads by quality score. |
maskqual
|
Masks low quality positions. |
trimqual
|
Trims sequences by quality score decay. |
output files:
-
<command>-pass
-
reads passing filtering operation and modified accordingly, where <command> is the name of the filtering operation that was run.
-
<command>-fail
-
raw reads failing filtering criteria, where <command> is the name of the filtering operation.
output annotation fields:
-
None
Releases
Unchanged in 3 releases since Debian 11 (Bullseye).