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advent_of_code

alphafold_non_docker

AlphaFold2 non-docker setup

annotation

Pipeline to run multiple tools to annotate prokaryotic genomes and parse output

bigscale2

Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data

coef

Collection Of Esoteric Functions

configs

crisprcas_on_plasmids

This is the code repository for reproducing analyses in the paper: CRISPR-Cas systems are widespread accessory elements across bacterial and archaeal plasmids

crisprcastyper

CCTyper: Automatic detection and subtyping of CRISPR-Cas operons

datest

Compare different differential abundance and expression methods

doc

Dissimilarity Overlap Curve analysis

esopy

Esoteric python scripts

growthcurver

jobson

A platform for transforming command-line applications into a job service.

maginator

MAGinator - Accurate SNV calling and profiling of MAGs

miceco

Various functions for analysis of microbial community data

misc

ngstools

NGSTools

rcon3d

3D Analysis of confocal images of microbial biofilms/communities

run_dbcan

Run_dbcan V2, using genomes/metagenomes/proteomes of any orgaisms(prokaryotes, fungi, plants, animals, viruses) to search for CAZymes.

russel88.github.io

sheso

Bioinformatic SHell scripts of Esoteric value

smellyshirts

Scripts and data for: The T-shirt microbiome is distinct between individuals and shaped by washing and fabric type

srufinder

Detect and subtype SRUs, mini-arrays, and CRISPR arrays by repeat matching