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aegenomicscourse

amgsim

aMGSIM is an extension of MGSIM to create simulated ancient metagenome reads in multiple microbial synthetic communities.

amgsim-smk

A snakemake workflow to generate multiple synthetic datasets using aMGSIM

ancient-environmental-genomics-course

anvio

An analysis and visualization platform for 'omics data

anvio.org

The anvi'o community web page

arctic-plants-busco

bam-filter

A simple tool to calculate metrics from a BAM file and filter references with uneven coverages

batchstars

R package for Stability Approach to Regularization Selection for lasso problems, in batch computing environments.

bbmap

(Not Offical) BBMap short read aligner, and other bioinformatic tools.

bioconda-recipes

Conda recipes for the bioconda channel.

collapse-gtdb-tree

A simple tool to collapse a GTDB to a certain rank.

component_inference

conda-package-publish-action

Github Action to deploy conda package to Anaconda repository

daligner

Find all significant local alignments between reads

decom

🗑️🦷 decOM 🦷🗑️

delmont_et_al_2022

densityclust

Clustering by fast search and find of density peaks

derep-genomes

A simple genome de-replication tool using fastANI and a bit of graph-based analysis

dmg-reads

A simple tool to extract damaged reads from BAM files

dotfiles

ebame3

ebame4

ebame5

Tutorial for the EBAME5 workshop

ebame7

ebame8

eggnog-smag

fraggenescanplusplus

Scalable high-throughput short-read open reading frame prediction

fundata

A repository for the Fundamentals Data Analysis course

funwithdawn