DNAscan2 is a fast and efficient bioinformatics pipeline that allows for the analysis of DNA Next Generation sequencing data, requiring very little computational effort and memory usage

hifiasm_meta - de novo metagenome assembler, based on hifiasm, a haplotype-resolved de novo assembler for PacBio Hifi reads.

Runs a combination of tools to generate structural variant calls on whole-genome sequencing data

GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/ncomms11307.html https://www.biorxiv.org/content/10.1101/7204…

xHLA: Fast and accurate HLA typing from short read sequence data

Pre-mAsking Long reads for Mobile Element inseRtion

Human pan-genome analysis pipeline

Reference-free profiling of polyploid genomes

MarginPolish: Graph based assembly polishing

User friendly mask-rcnn segmentation for images of yeast cells

Assembler for raw de novo genome assembly of long uncorrected reads.

Multi-sample transcriptome assembly from RNA-Seq

Fast structural variant detection, analysis and visualization in mate pair genetic sequence data.

(backup fork since google code is going down)

Graphical Fragment Assembly (GFA) Format Specification

NouGAT is a pipeline that automates de novo assembly project tasks, generating a first draft assembly.