jacobhepkema Goto Github PK

abc-enhancer-gene-prediction

Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)

annotpics

Annotate pictures given classes and keybindings

basset_singularity_from_docker

going to try to get this https://hub.docker.com/u/lzamparo to singularity img

batch_bus_booker

bcutils

Barcoding utilities (work in progress)

blogdown-yihui-template

A skeleton of my previous personal website based on blogdown and Hugo. I no longer use it.

cell2location

Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)

conv_shapes

don't think, let computer think

flax

Flax is a neural network library for JAX that is designed for flexibility.

free-programming-books

:books: Freely available programming books

igv-snapshot-automator

Script to automatically create and run IGV snapshot batchscripts

jacobhepkema

Config files for my GitHub profile.

jacobhepkema.github.io

Source code for my Github Pages website

livingphysics

Artificial chemistry game

minsepie

Modelling insertion efficiency for Prime Insertion Experiments

nextflow

A DSL for data-driven computational pipelines

nf-introduction

An introduction to Nextflow, focussed on files and channels

noncoding_visualisations

A collection (work in progress) of tools to help with visualisation of the non-coding genome.

primeflag

pybiofun

Random bits and bobs

pytorch

Tensors and Dynamic neural networks in Python with strong GPU acceleration

pytorch-singularity

A singularity and docker container to run pytorch in a HPC environment

pytorch_

Singularity Container for PyTorch

rna_deletions

scanem-motif

TOMTOM docker/singularity container for scanem

scanem-r

R docker container for scanem

scanem_pytorch_env

scatac_prep

A not-too-orderly collection of scripts for preprocessing and dimensionality reduction of scATAC-seq data

scfind

scover

scover