jfy133

Bioinformatician with specialism in ancient DNA and metagenomics. nf-core core-team member and SPAAM community founder. @jfy133@genomic.social

HKI Jena, MPI-EVA LeipzigLeipzig, Germany

Pinned Repositories

cuperdec
R library to generate 'Cumulative Percent Decay' curves for microbial taxonomic profiles
Language:R3 2 130
Hominid_Calculus_Microbiome_Evolution
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
Language:HTML14 3 10
MEx-IPA
Interactive results viewer for maltExtract
Language:R3 3 250
Tidy_PopGen_PCA_Plotting
A small R notebook describing how plot common (aDNA) population genetics PCAs using R and the tidyverse.
9 2 45
MInAS
Repository of proposed and combined MIxS + MInAS standardised metadata checklists using LinkML
Language:Python0 2 40
eager
A fully reproducible and state-of-the-art ancient DNA analysis pipeline
Language:Nextflow154 160 43782
funcscan
(Meta-)genome screening for functional and natural product gene sequences
Language:Nextflow77 99 15422
mag
Assembly and binning of metagenomes
Language:Nextflow224 161 307114
taxprofiler
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
Language:Nextflow134 156 20638
AncientMetagenomeDir
Repository containing lists of all published ancient metagenomic (and related) samples and libraries
Language:HTML68 13 48633

jfy133's Repositories

jfy133/eager1-tips-and-tricks
EAGER1 Tips and Tricks
1 3 00
jfy133/eagerutils
Unofficial collection of utility scripts for the EAGER v1.9.* genome reconstruction pipeline
Language:Shell1 2 0
jfy133/collapse_fastas
Small bash script to convert multiple (multi-)FASTAs into single file with single header
Language:Shell
jfy133/coproID
Coprolite host Identification
Language:Nextflow2 0