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lri

Long Range Interactions for Hi-C data

lux

Lux is an integrative hierarchical Bayesian model for analyzing any combination of BS-seq/oxBS-seq/TAB-seq/fCAB-seq/CAB-seq/redBS-seq/MAB-seq/etc data enabling accurate and unbiased quantification of different cytosine modifications (C/5mC/5hmC/5fC/5cac) and differential methylation at individual cytosines or loci, with or without replicates, while taking imperfect experimental parameters into account.

luxglm

lv_5species

AB model for 5 species in a Lotka -Volterra model

machine-learning

A repository of code examples for my machine learning class.

machine_learning_caret_workflow

Develop a generic machine learning workflow using caret

machine_learning_examples

A collection of machine learning examples and tutorials.

macs

MACS -- Model-based Analysis of ChIP-Seq

maftools

Summarize, Analyze and Visualize MAF files from TCGA or in house studies.

magma

eMetabolomics project: Mass Annotation based on in silico Generated Metabolites

malnutrition_microbiota

basic relative abundance and PCoA plotting examples for 16S amplicon sequencing data.

mapdb

An R package for mapping Pfam multiple sequence alignment (MSA in sth format) or Uniprot (MSA in fasta format) to PDB residue coordinates.

maq

http://maq.sourceforge.net

mare

Microbiota Analysis in R Easily

markdown

Markdown rendering for R

marscraterdata-c3-w2-regressionmodeling

Linear Regression Modeling of Mars Crater Data

marss

:exclamation: This is a read-only mirror of the CRAN R package repository. MARSS — Multivariate Autoregressive State-Space Modeling

mast

Tools and methods for analysis of single cell assay data in R

mathematicsbiostatisticsbootcamp2

The github repository for mathematical biostatistics bootcamp 2

matlab-probability-class

Resources and Materials for MATLAB Probability class

mcfly

A deep learning tool for time series classification

mds-approximations

Multidimensional scaling algorithm benchmarking for microbiology-ecology datasets.

mendelian

R package Mendelian

mendelianrandomization

:exclamation: This is a read-only mirror of the CRAN R package repository. MendelianRandomization — Mendelian Randomization Package

mendelscan

Analyze exome data for Mendelian disorders. Still in alpha-testing.

mesh

meta

Metadata used for WashU EpiGenome Browser

metabolights_submission_tools

The Metabolights data repository supports a diverse experimental description through means of "ISA tab" files. This format is a collection of tab-delimited text files that explain a Investigation, Study, and Assay. For metabolomics researchers, this provides detailed descriptions of experimental parameters, chromatography, mass spectrometry, and metabolites detected. The challenge is making the submission of this large amount of descriptive information quick and painless. Here are the tools I use to lower the barrier to submission.

metabolist

:exclamation: This is a read-only mirror of the CRAN R package repository. MetaboList — Annotation of Metabolites from Liquid Chromatography-Mass Spectrometry Data

metaboliteqc