Make Picrust2 Output Analysis and Visualization Easier

Local version of the virus identification and analysis web server (tool set)

Graph-based assembly phasing

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

A listing of software, tools and databases useful for virome analysis

Miscellaneous functions for metagenomic analysis.

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

The MG-RAST Backend -- the API server

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

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

StaG Metagenomic Workflow Collaboration

Lemur is a tool for rapid and accurate taxonomic profiling on long-read metagenomic datasets

The MG-RAST pipeline

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

Calculate confidence scores from Kraken2 output

Fast in-silico normalization algorithm for NGS data

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

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).

MAGqual is a command line tool to evaluate the quality of metagenomic bins and generate recommended metadata in line with the MIMAG standards

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

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

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

Creates a simple OTU table from Kraken2 report.

Taxonomy classification of viral sequences / contigs

Raspir, the rare species identifier

No description provided.

Genestrip - Efficient read classification, filtering and k-mer counting for selected groups of species

Analyzing shotgun data

🐋 The Living Oceans Metagenome Taxanomic Profiling tool (beta) is a metagenomic pipeine built to work on your local ocean

MetaTrinity is a novel metagenomic analysis tool employing efficient containment search techniques and heuristics for read mapping to achieve significant speedup while maintaining high accuracy. This positions MetaTrinity as an efficient solution, optimally balancing speed and precision in metagenomic analysis.