FilterSeq.py1
Filters sequences in fasta/fastq files
Overview
usage: FilterSeq.py [--version] [-h] ...
Filters sequences in FASTA/FASTQ files
help:
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--version -
show program's version number and exit
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-h, --help -
show this help message and exit
subcommands:
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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
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Trims sequences by quality score decay.
output files:
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<command>-pass
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reads passing filtering operation and modified accordingly, where <command> is the name of the filtering operation that was run.
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<command>-fail
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raw reads failing filtering criteria, where <command> is the name of the filtering operation.
output annotation fields:
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None