npm

rasusa

Randomly subsample sequencing reads or alignments from FASTQ/BAM files

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About

Randomly subsample sequencing reads or alignments

Commands

rasusa

Examples

Subsample FASTQ file to 1 million reads$ rasusa reads -n 1m input.fastq.gz -o output.fastq.gz

Subsample BAM file to 50% coverage$ rasusa reads -c 0.5 input.bam -o output.bam

Subsample paired-end FASTQ files with seed for reproducibility$ rasusa reads -n 500k -s 42 -o out_R1.fastq.gz -o out_R2.fastq.gz input_R1.fastq.gz input_R2.fastq.gz