Jos Smits's repositories
AnanseSeurat
Single cell ANANSE Gene-regulatory-network analysis from Seurat objects
regulatory-networks-in-epidermal-and-corneal-epithelia
code files related to the manuscript: Cell identity control coordinated by common and distinct transcription factors and associated gene regulatory networks in epidermal and corneal epithelia
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
anansnake
Automate long-running ANANSE analyses with snakemake
ggplot2
An implementation of the Grammar of Graphics in R
ggpubr
'ggplot2' Based Publication Ready Plots
gimmemotifs
Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed installation instructions and usage examples.
seq2science
Automated preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and RNA-seq workflows.
SnapATAC
Analysis Pipeline for Single Cell ATAC-seq