Cis Regulatory Elements Python Packages

tfbs-footprinting

Pipeline: Identification of cis-regulatory elements by matrix scoring and conservation.

circe-py

Co-accessibility network from single-cell ATAC-seq data. Python code with AnnData, based on Cicero algorithm.

tfbs-footprinting3

Pipeline: Identification of cis-regulatory elements by matrix scoring and analysis of supporting empirical biological data.