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16s_normalization

Script for the normalization of relative abundance out of DIAMOND default output (BLOSUM62 matrix) through a formula that relies on the 16S marker gene.

ampliflow

An automatic workflow for amplicon denoising and taxonomy assignment

ampliseq

16S rRNA amplicon sequencing analysis workflow using QIIME2

amrplusplus_v2

MEGARes and AmrPlusPlus - A comprehensive database of antimicrobial resistance genes and user-friendly pipeline for analysis of high-throughput sequencing data

biomakefiles

Library makefiles for various bioinformatic tools.

blast6_formatting

How to manipulate BLAST6 format tables through Python

colourededgerxlsx

Outputs an xlsx file with one tab for each contrast in a table, with colours for SEED categories and heatmaps for logFC, logCPM and FDR.

compbio-fundamentals

Course material for "Fundamentals of computational biology"

configs

Config files used to define parameters specific to compute environments at different Institutions

eemisdada2

Packaging of dada2

forking-workflow-exercise

Forking-workflow-exercise used for Git-collaborative online May 6th, 2020

git-intro

Introduction to version control with Git.

hpc-python

Python in High Performance Computing

metar

Collection of R scripts for statistical analyses on annotated metagenomic datasets

metatdenovo

modular-type-along

Type-along/demo where we discuss and experience aspects of (un)modular code development.