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metabox

a toolbox for metabolomic data analysis, visualization and ‘omic’ integration

metagenomefeatures

R package for annotating metagenomic datasets with taxonomic information

metagenomeseq

Statistical analysis for sparse high-throughput sequencing

metagenomic-pipeline

Brian Muegge's old metagenomic pipeline code.

metakallisto

Using kallisto for metagenomic analysis

metasane

A tool to validate metadata sanity

metasort

metasvm

metaSVM

metatlas

Metabolite Atlas Main Repository

metatlas-programmatic-access

methgo

MethGo: a comprehensive tool for analyzing whole-genome bisulfite sequencing data

methpipe

A pipeline for analyzing DNA methylation data from bisulfite sequencing.

methylation-lab

Example workflow for analyzing epigenome-wide DNA methylation data

methylflow

Cell-specific methylation pattern reconstruction

mice8992-2016

Code used in MiCE 8992 Spring 2016

microbemiseq

Set of useful functions and scripts for analyzing amplicon Miseq data.

microbiome

microbiome R package

midas

An integrated pipeline for estimating strain-level genomic variation from metagenomic data

mimosca

A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.

miniasm

Ultrafast de novo assembly for long noisy reads (though having no consensus step)

minibiokit

A mini Biochemistry toolkit that would aid in primer design, and provide some other functions that may have more use.

minimap

:earth_americas: Create Tile Grid Maps

miseq

Code for manipulating MiSeq data specific to the MME setup

miseq16s

miseq_wetlab_sop

mitty

Seven Bridges Genomics simulation and benchmarking tools

mixturemodel_geneclustering

Gene clustering based on a mixture model of joint probabilistic distribution of array signals and DNA sequences

mldr

R package for analyzing and manipulating multilabel datasets

mmseqs2

MMseqs2: ultra fast and sensitive search and clustering suite

mmtf-python

The python implementation of the MMTF API, decoder and encoder.