Make Picrust2 Output Analysis and Visualization Easier

memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping

The MG-RAST Backend -- the API server

Miscellaneous functions for metagenomic analysis.

Graph-based assembly phasing

LRBinner is a long-read binning tool published in WABI 2021 proceedings and AMB.

StaG Metagenomic Workflow Collaboration

The MG-RAST pipeline

Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat

Fast in-silico normalization algorithm for NGS data

VirBot: a protein-based RNA virus detector for metagenomic data

This repository contains all CWL descriptions of the MGnify pipeline version 5.0.

MerCat: python code for versatile k-mer counting and diversity estimation for database independent property analysis for meta -ome data

Calculate confidence scores from Kraken2 output

iMAP v1.0 (Pre-release): Integrated Microbiome Analysis Pipeline

Fast sequence vectorization for metagenomics analysis. Converts input sequences into oligonucleotide frequency vectors, fast!

Genome-on-Diet is a fast and memory-frugal framework for exemplifying sparsified genomics for read mapping, containment search, and metagenomic profiling. It is much faster & more memory-efficient than minimap2 for Illumina, HiFi, and ONT reads. Described by Alser et al. (preliminary version: https://arxiv.org/abs/2211.08157).

Raspir, the rare species identifier

MerCat2: python code for versatile k-mer counting and diversity estimation for database independent property analysis for metaome data