Name: James A. Fellows Yates
Type: User
Company: HKI Jena, MPI-EVA Leipzig
Bio: Bioinformatician with specialism in ancient DNA and metagenomics. nf-core core-team member and SPAAM community founder.
@[email protected]
Twitter: jfy133
Location: Leipzig, Germany
Blog: jafy.eu
James A. Fellows Yates's Projects
Command's from Mikkel's github sessiopn at ACAD aeDNA workshop
A list of various lists consisting of academics on Mastodon
Ancient DNA Read Simulator for Metagenomic
Postprocessing script for MALTextract.
Repository containing lists of all published ancient metagenome samples (and related)
Simple form to let users for the „Academics on Mastodon“ lists generate their csv entries and send them via E-mail
[Under constrution] Pipeline for metagenomic identification and authentication of ancient dietary DNA from archaeological samples
Simple test framework for Nextflow pipelines
Bingo web app (work in progress)
Conda recipes for the bioconda channel.
Unsorted scripts for bioinformatics
Small bash script to convert multiple (multi-)FASTAs into single file with single header
Nextflow config builder scripts for supported HPC infrastructures.
Coprolite host Identification
R library to generate 'Cumulative Percent Decay' curves for microbial taxonomic profiles
A Java based tool to determine damage patterns on ancient DNA as a replacement for mapDamage
A merged read deduplication tool capable to perform merged read deduplication on single end data.
Personal dotfiles
EAGER1 Tips and Tricks
Unofficial collection of utility scripts for the EAGER v1.9.* genome reconstruction pipeline
endorS.py calculates endogenous DNA from samtools flagstat files and print to screen
gargammel is an ancient DNA simulator
Minimum Information about any (X) Sequence” (MIxS) specification
Additional supplementary information and code, data repository for Fellows Yates, J.A. et al. (2021) PNAS. DOI: http://dx.doi.org/10.1073/pnas.2021655118