Pinned Repositories
airflow-fs
Composable filesystem hooks and operators for Apache Airflow.
geneviz
Library for visualising genomic features in Python.
ilc-sb-screen
Jupyter notebooks and code accompanying our paper "Insertional mutagenesis identifies drivers of a novel oncogenic pathway in invasive lobular breast carcinoma" in Nature Genetics (2017).
pybiomart
A simple pythonic interface to biomart.
pyim
Tool for identifying transposon insertions from targeted DNA-sequencing data.
randomforest-matlab
Fork of randomforest-matlab project by Abhishek Jaiantilal.
snakemake-cnvseq
Snakemake workflow for processing CNV-seq data.
snakemake-exome
Snakemake workflow for processing exome data.
snakemake-rnaseq
RNA-seq workflow for Snakemake based on STAR and featureCounts.
imfusion
Tool for identifying transposon insertions and their effects from RNA-seq data.
jrderuiter's Repositories
jrderuiter/pybiomart
A simple pythonic interface to biomart.
jrderuiter/snakemake-rnaseq
RNA-seq workflow for Snakemake based on STAR and featureCounts.
jrderuiter/airflow-fs
Composable filesystem hooks and operators for Apache Airflow.
jrderuiter/snakemake-exome
Snakemake workflow for processing exome data.
jrderuiter/snakemake-cnvseq
Snakemake workflow for processing CNV-seq data.
jrderuiter/production-ready-ml
jrderuiter/code-breakfast-vertex-ai
Code breakfast focusing on Vertex AI.
jrderuiter/dacite-config
Helpers for creating typed, IDE-friendly configs in Python using dataclasses and `dacite`.
jrderuiter/code-breakfast-productionizing
jrderuiter/heos
Python library for interacting with HEOS multi-room speakers.
jrderuiter/jupyterlab-vscode
Docker image with JupyterLab + VSCode Server for browser-based editing.
jrderuiter/openvscode-python
Small example of a Docker container that clones a Python repo and exposes it in openvscode-server.
jrderuiter/snakemake-pdx-exome
Snakemake workflow for processing pdx exome data.
jrderuiter/airflow
Apache Airflow - A platform to programmatically author, schedule, and monitor workflows
jrderuiter/airflow-training-skeleton
Skeleton project for Apache Airflow training participants to work on.
jrderuiter/azureml-package-example
Example of using Python packages with Azure ML.
jrderuiter/cookiecutter-data-science
A logical, reasonably standardized, but flexible project structure for doing and sharing data science work.
jrderuiter/cookiecutter-pypackage
Cookiecutter template for a Python package.
jrderuiter/custom-images
Tools for creating Dataproc custom images
jrderuiter/de-python-hackathon
jrderuiter/docker-airflow-codeserver
Docker compose setup with both Airflow + code-server.
jrderuiter/heos-remote
Control HEOS-powered speakers using a physical (bluetooth) remote.
jrderuiter/homeassistant-core
:house_with_garden: Open source home automation that puts local control and privacy first.
jrderuiter/jupyterhub
jrderuiter/minikube
Run Kubernetes locally
jrderuiter/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
jrderuiter/penguins
jrderuiter/structurizr-themes
jrderuiter/vertex-workbench-vscode
Custom VM image for Vertex Workbench with OpenVSCode, Pyenv and Poetry.
jrderuiter/whirl
Fast iterative local development and testing of Apache Airflow workflows