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alnnotator

Annotate multiple sequence alignments with domain information

amor

Abundance Matrix Operations in R

amorglmnet

glmnet model on Dataset objects

anchurus

Analyzing SNPs in metagenomes

ancom

R scripts for Analysis of Composition of Microbiomes (ANCOM).

awesome-selfhosted

A list of Free Software network services and web applications which can be hosted locally. Selfhosting is the process of hosting and managing applications instead of renting from Software-as-a-Service providers

bugwas

Locus and lineage tests for bacterial GWAS

checkm_batch

combinatorix

Combinatoric bacterial communities to modulate plant phenotypes

combinatorixdata

Data for combinatorix package

delta_statistic

Codes for calculating delta, a phylogenetic analog of the Shannon entropy for measuring the degree of phylogenetic signal between a categorical trait and a phylogeny.

gene_enrichments

grins

Code for the manuscript describing discovery and distribution of GRINS in bacteria.

hct

hgtector

HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.

hmvar

Human Microbiome Variant Analysis in R

instrain

Bioinformatics program inStrain

maia-chess

Maia is a human-like neural network chess engine trained on millions of human games.

mbimbam

A BIMBAM fork

microdynamics

Differential equations for modelling microbe-microbe dynamics

micropopgen

Scripts and utilities used @TheFraserLab

mytestpackage

nextflow-patterns

General nextflow patterns. Inspired by https://github.com/nextflow-io/patterns but more specific

pbi

Microbiome analysis for phosphate-defense interaction

pgca

Plate Growth Curve Analysis

phybreak

Outbreak reconstruction with sequence data

phylomut

potcropper

registry.gimp.org_static

A wget backup of http://registry.gimp.org

rerconverge

Analysis of convergence between organismal traits and DNA/protein sequences