Julian Libiseller-Egger's repositories
TB-AMR-CNN
Convolutional Neural Network to predict antibiotic resistance from M. tuberculosis sequence data; inspired by https://github.com/aggreen/MTB-CNN with the main difference of being independent of input dimensions; implemented in TensorFlow
binary-hamming-dist
NA-agnostic pairwise Hamming distance of binary data
bioconda-recipes
Conda recipes for the bioconda channel.
coreutils
Cross-platform Rust rewrite of the GNU coreutils
git
Git Source Code Mirror - This is a publish-only repository but pull requests can be turned into patches to the mailing list via GitGitGadget (https://gitgitgadget.github.io/). Please follow Documentation/SubmittingPatches procedure for any of your improvements.
heartage
NHSC Heart age tool
MTB-CNN
CNN models for antibiotic resistance prediction in M. tuberculosis genomes. From Green & Yoon et al (forthcoming)
pandas
Flexible and powerful data analysis / manipulation library for Python, providing labeled data structures similar to R data.frame objects, statistical functions, and much more
pingouin
Statistical package in Python based on Pandas
polars
Fast multi-threaded, hybrid-out-of-core query engine focussing on DataFrame front-ends
pv-feedstock
A conda-smithy repository for pv.
pyseer
SEER, reimplemented in python 🐍🔮
qmplot
A Python package for creating high-quality manhattan and Q-Q plots from GWAS results.
scikit-learn
scikit-learn: machine learning in Python
staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
tb-ml-containers
Docker containers for use in https://github.com/jodyphelan/tb-ml
vcf-toy-data
minimal VCF toy dataset
who2tbp
A script to convert WHO MTB resistant variants to a format that can be ingested by TBProfiler
xxh-plugin-prerun-core
xxh wrappers for core tools: xxh-sudo, xxh-screen