Creating figures and animations for multi-channel images with a focus on microscopy.

Scripts to generate True Muonium MC simulation events with condor

Repository for analysis using displaced tau leptons in CMS --> Now mirrored from CERN's GitLab instance

Code accompanying "Prospective identification of hematopoietic lineage choice by deep learning", Nature methods 2017, DOI:10.1038/nmeth.4182

A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.

starfish: unified pipelines for image-based transcriptomics

ZeroCostDL4Mic: A Google Colab based no-cost toolbox to explore Deep-Learning in Microscopy

Density-preserving data visualization tools den-SNE and densMAP

Cell tracker designed for tracking intestinal organoids

iDM analysis code (plotting and cutflows)

iDM analysis code (skimming and trigger/reco efficiency)

a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

Code for paper

scRNA-seq analysis beyond gene annotations using transcriptionally active regions (TARs) generated from sequence alignment data

R package and vignette to denoise metagenomic cell-free DNA sequencing data.