bed_to_1hot

bedtools2

bedtools - the swiss army knife for genome arithmetic

bioconda-recipes

Conda recipes for the bioconda channel.

cfdna_gccorrection

csaps

Cubic spline approximation (smoothing)

deeptools

Tools to process and analyze deep sequencing data.

eccb2020

ECCB2020 tutorial: Using Deep Learning For Image and Sequence Analysis

eccb2021

eccb2022_sc_funcomics

Functional analysis of single-cell transcriptomics

expecto

fasta_one_hot_encoder

Simple python to lazily one-hot encode fasta files using multiple processes.

gcparagon

commandline tool for fast computation and correction of GC biases in WGS DNA datasets from liquid biopsy samples taking the fragment length into account

handson-ml2

A series of Jupyter notebooks that walk you through the fundamentals of Machine Learning and Deep Learning in Python using Scikit-Learn, Keras and TensorFlow 2.

machine-learning-mindmap

A mindmap summarising Machine Learning concepts, from Data Analysis to Deep Learning.

minimal_pypackage_template

Minimal cookiecutter template for Python packages

numerical-linear-algebra

Free online textbook of Jupyter notebooks for fast.ai Computational Linear Algebra course

shap

A game theoretic approach to explain the output of any machine learning model.

snakemake

This is the development home of the workflow management system Snakemake. For general information, see

snakemake-wrappers

This is the development home of the Snakemake wrapper repository, see

snakemake_tutorial

Snakemake tutorial based on the official documentation of snakemake

sroener

vscode-python

Python extension for Visual Studio Code