Sickle
Supported Tool
Windowed Adaptive Trimming for FastQ files using quality
Description
The Sickle module parses standard error generated by
Sickle, a
windowed Adaptive Trimming for fastq files using quality. StdOut can be captured by
directing it to a file e.g. sickle command 2> sickle_out.log
The module generates the sample names based on the filenames.
File search patterns
sickle:
contents_re: "FastQ \\w*\\s?records kept: .*"
num_lines: 2