Paired End and Single End Fastq Coverage Downsampling

Python script for downsampling batches of fastq files according to sample name using the seqtk toolkit

CovTrim is a specialized bioinformatics tool designed for precise coverage-based downsampling of FASTQ files from amplicon sequencing data.

FASTQ downsampling using seqtk

A C++ tool for downsampling fastq reads

Code for Downsampling both FASTQs and BAMs (used in Hughes, Wadsworth, Gierahn et al 2020 to benchmark Seq-Well S^3 and 10x V3)

a simple snakemake workflow on downsampling fastq files using seqtk

Workflow to assemble FASTQ reads and generate taxonomic summaries using DIAMOND NR alignments, with optional downsampling for cross-library comparison.