Seqtk - Subsample Reads

Randomly select user-configured number of reads from fastq files.

Location

• Filepath: <SnakeLines_dir>/rules/reads/preprocess/subsampled/seqtk.snake
• Rule name: seqtk__subsample_reads

Input(s):

• r1: filename with R1 reads
• r2: filename with R2 reads

Output(s):

• r1: filename with subsampled R1 reads
• r2: filename with subsampled R2 reads

Param(s):

• seed: int - seed of the random generator for subsampling
• n_reads: int - number of reads to keep in subsampled set