An analysis and visualization platform for 'omics data

SortMeRNA: next-generation sequence filtering and alignment tool

sensitive and precise assembly of short sequencing reads

A modular end-to-end suite for in silico recovery, clustering, and analysis of prokaryotic, microeukaryotic, and viral genomes from metagenomes

A tool for representing genomic potential and transcriptomic expression into KEGG pathways

Meta-Omics Software for Community Analysis

Assembly and annotation of metatranscriptomic or metagenomic data for prokaryotic, eukaryotic and viruses.

Pipeline for metagenome and metatranscriptome joint assembly

MTD: a unique pipeline for host and meta-transcriptome joint and integrative analyses of RNA-seq data

Open-source opinionated Galaxy-based framework for microbiota analysis

Comparative Metatranscriptomics Workflow

Interactive visualisation and data annotation for meta-omics data

Genome-centric Multi-omic Analysis Workflow for the Marinimicrobia paper

🍰 Per sequence functional classification and taxonomic assignments

Taxonomic classification of metagenomic contigs

The Soil Virome Analysis Pipeline (SOVAP) is designed to process, analyze, and annotate viromics and metagenomics data using cutting-edge tools, providing valuable insights into the virome and microbial communities found in complex environments, such as soil ecosystems.

gNOMO2 allows integrated multi-omics analyses of microbiomes

Repository associated with Jenior ML, et al. (2018). mSphere.

Metagenomics and Metatranscriptomics pipeline