Supplementary code and notebooks for the nf-core/taxprofiler and nf-core/createtaxdb publication

MIaaRD version of the the DataHarmonizer version of standardized browser-based spreadsheet editor and validator that can be run offline and locally.

Minimum Information about a Radiocarbon Determination

metaDMG-cpp

Holi is an open-source research codebase supporting reproducible scientific analysis. It contains scripts for running metagenomic assignments and a wiki with documentation and explanation of the di…

Tool repositiory for bam files

A Nextflow workflow for aligning, genotyping, and variant calling ancient or modern DNA against pangenome graphs

the pangenome graph builder

Ancient microbiome snakemake workflow

AMBER - Ancient Metagenomic BinnER: damage-aware contrastive learning for ancient DNA binning

EMBO Practical Pangenomics Course 2026

DNAharvester: A Nextflow Pipeline for Analysing Highly Degraded DNA from Ancient and Historical Specimens

An agent-managed museum exhibit, built in Rust with Gajae-Code / LazyCodex — developed and maintained with no human intervention.

ancient pathogen screening workflow

Metagenomic Pipeline for ancient DNA analysis performed at the Centre for Palaeogenetics - Stockholm

💥 Quickly calculate and visualize sequence coverage in alignment files

R Package - Spatiotemporal Ancestry Interpolation and Search

Plot Edit distance and ANI before and after threshold with a BAM as input.

Bayesian inference of ancestral dates on bacterial phylogenetic trees

Genome browser and variant annotation

✂️ ⚡ Rapid haploid variant calling and core genome alignment

An nf-core compliant version of aMeta; An ancient metagenomic profiling Snakemake workflow

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

Friends don't let friends make certain types of data visualization - What are they and why are they bad.

aDNA BAM plotter script for microbial genomes