Simon van Heeringen (simonvh)

simonvh

User data from Github https://github.com/simonvh

Company:@ScenicBiotech

Location:the Netherlands

GitHub:@simonvh


Organizations
vanheeringen-lab

Simon van Heeringen's repositories

fluff

Fluff is a Python package that contains several scripts to produce pretty, publication-quality figures for next-generation sequencing experiments.

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bioinfosummer

Tutorial for AMSI BioInfoSummer 2018

pita

Pipeline to improve transcript annotation based on RNA-seq and ChIP-seq data.

GEOparse

Python library to access Gene Expression Omnibus Database (GEO)

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p53scan

p53scan & p63scan: search for the p53 or p63 motif

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ANANSE

Prediction of key transcription factors in cell fate determination using enhancer networks. See full ANANSE documentation for detailed installation instructions and usage examples. http://anansepy.readthedocs.io

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bioconda-recipes

Conda recipes for the bioconda channel.

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bioconda-utils

Utilities for building and managing bioconda recipes

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biothings_client.py

This is a generic Python client for BioThings APIs

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bokeh

Interactive Data Visualization in the browser, from Python

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bucketcache-feedstock

A conda-smithy repository for bucketcache.

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cargo-port

cache packages permanently

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dragonn

A toolkit to learn how to model and interpret regulatory sequence data using deep learning.

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kerasR

R interface to the keras library

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maelstrom-poster

Maelstrom poster for RSG-DREAM 2016

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norns

Simple yaml-based config module

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numpy

The fundamental package for scientific computing with Python.

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pharmgkb

BioThings Studio tutorial

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psap

CLI interface for the PSAP classifier, Mierlo, G. van. Predicting protein condensate formation using machine learning (Manuscript in Preparation).

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pybedtools

Python wrapper -- and more -- for Aaron Quinlan's BEDTools (bioinformatics tools)

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pyfaidx

Efficient pythonic random access to fasta subsequences

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pySCENIC

pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-CEll regulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.

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refgenconf

A python object for standardized reference genome assets.

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seaborn

Statistical data visualization in Python

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seq2science

Automated preprocessing of Next-Generation-Sequencing data, including full ATAC-seq, ChIP-seq, and RNA-seq workflows. Take a look at the docs: https://vanheeringen-lab.github.io/seq2science

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sklearn-contrib-lightning-feedstock

A conda-smithy repository for sklearn-contrib-lightning.

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staged-recipes

A place to submit conda recipes before they become fully fledged conda-forge feedstocks

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