rchikhi Goto Github PK

2022-pangenome-aws

2022 WABI Pangenome workshop hackathon (AWS intro)

2022-pangenome-graphs-intro

aws-batch-runtime-monitoring

Serverless application to monitor an AWS Batch architecture through dashboards. CloudTrail creation fork

bandageng

a Bioinformatics Application for Navigating De novo Assembly Graphs Easily

benchmphf

Benchmark of four minimal perfect hash libraries (phf, emphf, CMPH, Sux4J)

besst

BESST - scaffolder for genomic assemblies

bioconda-recipes

Conda recipes for the bioconda channel.

bothie

braw

Box of not RelAted Work

canu

A single molecule sequence assembler for genomes large and small.

constant_memory_tip_removal

Remove tips and short isolated vertices from a de bruijn graph that resides in a file, in constant memory

contigvalidator

It outputs the alignment of an assembler using simple exact matching and bwa mem

cuttlefish

Cuttlefish2 except that it also output approximate mean k+1-mer counts on the unitigs, and many other specific optimisations for my use case

dbg

Naive de Bruijn graph implementation in python

debruijn

de Bruijn graph construction tool

docker-gatb-pipeline

docker-minia

Docker image for the minia assembler

dynamicdbg

Practical Dynamic de Bruijn Graphs

formula-patches

:hospital: Patches for Homebrew formulae

fqgz

A FASTQ-only gzip decompressor that supports approximate random access, based on libdeflate

gatb-core-stripped

gatb-lite

genemark-etp

GeneMark-ETP: gene finding in eukaryotic genomes supported by transcriptome sequencing and protein homology

gpt-is-you

Personalized language model from Whatsapp chat history

homebrew-core

:beers::penguin: Core formulae for the Linuxbrew package manager

in_place_fastx

kamix

Index and query k-mer matrices in BGZF

kff-cpp-api

A C++ API to read and write kff files

kff-tools

kmc

Fast and frugal disk based k-mer counter