Maxime Borry | Maxime Borry, PhD

nf-core/coproID v2.0: An improved pipeline for the identification of (palaeo)faecal depositors

Sun, 15 Mar 2026 00:00:00 +0000

Introduction to Ancient Metagenomics Textbook

Sun, 01 Sep 2024 00:00:00 +0000

Introduction to Ancient Metagenomics textbook:

“Focusing on host-associated ancient metagenomics, readers will learn the main steps of ancient metagenomic bioinformatic workflows, become familiar with the command line, learn how to process next-generation-sequencing (NGS) data, conduct taxonomic profiling of datasets, carry out ecological analyses, and perform de novo metagenomic assembly. By the end of the textbook, readers will have an understanding of how to effectively carry out the major bioinformatic components of an ancient metagenomic project in an open, reliable, and reproducible manner”

TAXPASTA: TAXonomic Profile Aggregation and STAndardisation

Tue, 11 Jul 2023 00:00:00 +0000

Natural Products from Reconstructed Bacterial Genomes of the Middle and Upper Paleolithic

Mon, 01 May 2023 00:00:00 +0000

nf-core/taxprofiler: highly parallelised and flexible pipeline for metagenomic taxonomic classification and profiling

Sun, 01 Jan 2023 00:00:00 +0000

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sam2lca: Lowest Common Ancestor for SAM/BAM/CRAM alignment files

Wed, 01 Jun 2022 00:00:00 +0000

PyDamage: automated ancient damage identification and estimation for contigs in ancient DNA de novo assembly

Thu, 01 Jul 2021 00:00:00 +0000

Reconstruction of ancient microbial genomes from the human gut

Sat, 01 May 2021 00:00:00 +0000

Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager

Mon, 01 Mar 2021 00:00:00 +0000

Community-curated and standardised metadata of published ancient metagenomic samples with AncientMetagenomeDir

Fri, 01 Jan 2021 00:00:00 +0000

Sourcepredict: Prediction of metagenomic sample sources using dimension reduction followed by machine learning classification

Sun, 01 Sep 2019 00:00:00 +0000