wkopp
Researcher at the BIMSB - Max Delbrück center for molecular medicine.
Max Delbrück center for molecular medicineBerlin
Pinned Repositories
bavaria
Batch-adversarial variational auto-encoder (BAVARIA) for simultaneous dimensionality reduction and integration of single-cell ATAC-seq datasets
janggu
Deep learning infrastructure for genomics
scbrowse
An interactive browser for single-cell ATAC-seq data
scregseg
Single-cell regulatory landscape segmentation
janggu_usecases
Examples for deep learning in genomics using Janggu
mdist
R package for determining motif enrichment in DNA sequences
motifcounter
R package for identifying motif matches and motif enrichment in DNA sequences
SpreedictorMPowerParkinson
This project was used for participating in the MPower Subchallenge of the Parkinson's disease digital biomarker DREAM challenge
wkopp's Repositories
wkopp/janggu_usecases
Examples for deep learning in genomics using Janggu
wkopp/motifcounter
R package for identifying motif matches and motif enrichment in DNA sequences
wkopp/SpreedictorMPowerParkinson
This project was used for participating in the MPower Subchallenge of the Parkinson's disease digital biomarker DREAM challenge
wkopp/mdist
R package for determining motif enrichment in DNA sequences
wkopp/awesome-expression-browser
😎 A curated list of software and resources for exploring and visualizing (browsing) expression data 😎
wkopp/bioconda-recipes
Conda recipes for the bioconda channel.
wkopp/bluewhalecore
wkopp/bplda
Latent Dirichlet allocation fitted via loopy belief propagation
wkopp/cisTopic
cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
wkopp/cookiecutter-beamer
Template for beamer presentation
wkopp/cookiecutter-snakemake-analysis-pipeline
A cookiecutter template that reflects my favored structure for setting up Snakemake-based analysis pipelines.
wkopp/CoolBox
Jupyter notebook based genomic data visualization toolkit.
wkopp/fastbook
The fastai book, published as Jupyter Notebooks
wkopp/galaxytools
:microscope::books: Galaxy Tool wrappers
wkopp/genomeutils
wkopp/hmmlearn
Hidden Markov Models in Python, with scikit-learn like API
wkopp/htseq
HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
wkopp/loompy
Python implementation of the Loom file format - http://loompy.org
wkopp/mimic-code
MIMIC Code Repository: Code shared by the research community for the MIMIC-III database
wkopp/nmvae-experiments
Benchmarking computational single cell ATAC-seq methods
wkopp/pytorch-SkipGram
Implementing Skip-gram Negative Sampling with pytorch
wkopp/SnapTools
A module for working with snap files in Python
wkopp/SpreedictorLDopaParkinson
This project was used for participating in the Subchallenges 2.1-2.3 of the Parkinson's disease digital biomarker DREAM challenge
wkopp/staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
wkopp/tools-iuc
Tool Shed repositories maintained by the Intergalactic Utilities Commission
wkopp/wkopp.github.io