metagenopolis

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), functional analysis and strain-level population structure inference.

A browser-based curation interface for contamination events detected by CroCoDeEL.

CroCoClean decontaminates species abundance profiles from metagenomic samples affected by cross-sample contamination

CroCoDeEL detects cross-sample contamination in shotgun metagenomic data

NeighborFinder is an R package enabling the identification of the local neighborhood of a species of interest, based on microbiome data.

CroCoDeEL auxillary scripts and workflows

Workflow for quality control of FASTQ files, performing adapter removal, read trimming and host read removal

Workflow that randomly subsamples a fixed number of reads from FASTQ files

OneNet is a stability based network inference aggregation method from whole metagenome sequencing data, which aims at fostering reproducibility and precision