Meteor is a plateform for quantitative metagenomics profiling of complex ecosystems. Meteor relies on genes catalogue to perform species-level taxonomic profiling (Bacteria, Archaea and Eukaryotes)…

✨ Magical shell history

Website for the textbook Mathematical Methods in Data Science (MMiDS) by Sebastien Roch

🤝 Tool for mining KEGG pathways completeness data from eggNOG-mapper annotations

Master programming by recreating your favorite technologies from scratch.

List of software packages for multi-omics analysis

Containers for DNALinux

Commands and pipelines for comparative genomics of Rickettsiella.

A pipeline for analyzing bacterial genomic sequences. Easily.

This is the standalone version of the EviAnn pipeline

Convert a Docker image to an executable

Understanding Deep Learning - Simon J.D. Prince

Pairwise whole genome aligner

Grammar of Scalable Linked Interactive Nucleotide Graphics

Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focus of shotgun metaomics data

The EasyMultiProfiler package aims to offer a user-friendly and efficient multi-omics data analysis tool on the R platform. It facilitates various essential tasks related to microbiome, genome, and…

Batch Correction and Adaptive Contrast Calling in Complex RNA-seq Experimental Designs Using DESeq2

A high-throughput genotyping-by-sequencing (GBS) pipeline integrating DeepVariant and GLnexus for accurate variant calling in plant genomics.

A collection of scripts and notes related to genomics and bioinformatics

Developmental private RNASeq pipeline for bacterial quantification.

Miscellaneous bioinformatic helper scripts for various tasks

Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project

Chromosome-level genome assemblies for the latent pine pathogen, Diplodia sapinea, reveal two rapidly evolving accessory chromosomes

CLI tool to process and analyze MAF files ( Multiple alignment format )

ggplot2: elegant graphics for data analysis

A curated list of awesome pipeline toolkits inspired by Awesome Sysadmin

Telomere-to-telomere of ChineseQuartet (CQ)

A tool for generating consensus long-read assemblies for bacterial genomes