fastq_set

Tools for working with groups FASTQ of files. Major functionality includes:

• Find groups FASTQs (R1/R2/I1/I2) following Illumina filename conventions
• Parsing flowcell information from Illumina FASTQ headers
• High-speed FASTQ I/O (via the fastq crate), with careful validation of FASTQ correctness and good error message.
• Containers for FASTQ read-pairs (along with index reads), providing access to 'technical' read components like cell barcode and UMI sequences.
• Flexible read trimming inspired by cutadapt