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anvio

An analysis and visualization platform for 'omics data

atlas-beta

Beta version of ATLAS in the sean-dev branch.

atlas-original

From Pre-print. ATLAS (Automatic Tool for Local Assembly Structures) - a comprehensive infrastructure for assembly, annotation, and genomic binning of metagenomic and metatranscriptomic data

atlas_beta

bacterialpopulationgenomics

Bacterial Population Genomics Special Topics Course PLP 512: Special Topics in Plant Pathology (1 unit), Washington State University

chunker

Command line tool to split a file into chunks of user-specified size, respecting delimitted breaks.

data-science-cheat-sheets

List of Data Science Cheatsheets to rule the world

deep-learning-book

Repository for "Introduction to Artificial Neural Networks and Deep Learning: A Practical Guide with Applications in Python"

fabi_workshop

Metagenomics and metatranscriptomics workshop -Forestry and Agricultural Biotechnology Insititute (FABI), University of Pretoria, South Africa, 22-26 October 2018

foam

script to run FOAM

mercat

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

metagenomics-workshop

Metagenomics Workshop 2014-5-21 to 2014-5-23 at SciLifeLab, Stockholm

metapathways

centos version

oneliners

One liners and useful scripts for computational biology

pattern_classification

A collection of tutorials and examples for solving and understanding machine learning and pattern classification tasks

phytobacteriology

PLP 514 Phytobacteriology - Washington State University

pleucotricha_mildew

progbio

Teaching materials for classes teaching programming to biologists

proteomics

python-machine-learning-book

The "Python Machine Learning (1st edition)" book code repository and info resource

python-machine-learning-book-2nd-edition

The "Python Machine Learning (2nd edition)" book code repository and info resource

sharkbay_archaea

sharkbay_metagenomes

sharkbay_virome

microbialites stromatolites metagenomes metagenomics denovo-assembly

software-carpentry-2015

strain_rw1

This is code and data associated with strain manuscript "The complete genome and physiological analysis of the microbialite-dwelling Agrococcus pavilionensis sp. nov; reveals genetic promiscuity and predicted adaptations to environmental stress" Frontiers

strain_rw2

This is code and data associated with strain manuscript "The complete genome and physiological analysis of the eurythermal firmicute Exiguobacterium chiriqhucha strain RW2 isolated from a freshwater microbialite, widely adaptable to broad thermal, pH and salinity ranges" Frontiers