OpenGene - Open Source Genetics Toolbox

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting...)

Generate consensus reads to reduce sequencing noises and remove duplications

Query Mutated Reads from a Bam

Detect and visualize microsatellite instability(MSI) from NGS data

Gene fusion detection and visualization

repack Illumina format FASTQ to a smaller binary file (.rfq), which can be further compressed by xz (.rfq.xz)

Pattern Recognition for Cell-free DNA

Detect and visualize target mutations by scanning FastQ files directly

check paired-end FASTQ data integrity

Ultra-fast Multi-threaded FASTQ Demultiplexing

Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data

awesome-bio-datasets

Slice a text file (like FastQ) to smaller files by lines, with gzip supported

(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia

A simplified pipeline for ctDNA sequencing data analysis

(No maintenance) Detect gene fusion directly from raw fastq files

(No maintenance) Next Generation Sequencing Simulation with SNP, Variation and Sequencing Error Integrated

Deduplication for cfDNA sequencing data