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cellranger_recount

countland

tools in python and R for analyzing biological count data, especially from single cell RNAseq

covid19

customsc

desequi

docker-stan

Dockerfiles with rstan and CmdStan

ds_ml_kurs_2021

elabftw

Lab manager, experiment notebook, database for research labs

emacs-slack

slack client for emacs

embedding_explorer

Interactive shiny app for gene expression exploration in low dimensional embeddings

fun_dm_paper

gantty

Project planning from the terminal

gelquant

gmpr

Calculate the normalizing factors for zeroinflated sequencing data such as microbiome sequencing data

gpclust

Clustering time series using Gaussian processes and Variational Bayes.

hts-r-functions

identifyvsgs

Python tool to identify VSG sequences in transcript assemblies

integer_matrix_approximation

approximation of integer matrix factorization for python and r

klprint.github.io

A configurable portfolio-style jekyll theme for writers.

linux-timemachine

Rsync-based OSX-like time machine for Linux, MacOS and BSD for atomic and resumable local and remote backups

markerdb

R access to MarkerDB

mimb_manuscript_2018

paper

My pandoc-based project skeleton.

parse_org

pydna

Python classes for double stranded DNA and functions for simulating homologous recombination, Gibson assembly and cut&paste cloning.

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.

r-countland

r-ima

rnaseqdb

scpython