Easier download/extract of FASTA/Q read data and metadata from the ENA, NCBI, AWS or GCP.
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Updated
Jan 19, 2024 - Python
Easier download/extract of FASTA/Q read data and metadata from the ENA, NCBI, AWS or GCP.
FASTQ compression
An efficient FASTQ manipulation suite
Parse and process FASTA and FASTQ formatted files of biological sequences.
Validation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.
A versatile compressor of third generation sequencing reads.
ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to amalgamate reads derived from the same DNA template into a consensus sequence.
Fast k-mer based tool for multi locus sequence typing (MLST)
Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)
LAVA: Longitudinal Analysis of Viral Alleles
👷 Fasten toolkit, for streaming operations on fastq files
Nextflow script for processing WGS data
The DKFZ alignment workflow plugin originally developed at the eilslabs
Command line utility for manipulating Illumina-generated FASTQ files.
less like viewer for fastq files
A simple fastp-MultiQC nextflow pipeline
Nextflow-based BAM-to-FASTQ conversion and FASTQ-sorting workflow.
Datastores for reads, not your papa's FASTQ files.
A simple nextflow pipeline for Illumina run metrics (InterOp) and generation of fastq files (bcl2fastq)
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