README.md

In aertslab/ScoMAP: ScoMAP: Single-Cell Omics Mapping into spatial Axes using Pseudotemporal ordering

ScoMAP

News

• 7/04/2019: Binarization of enhancer-to-gene links and export to bigInteract format added.

What is ScoMAP?

ScoMAP (Single-Cell Omics Mapping into spatial Axes using Pseudotemporall ordering) is an R package to spatially integrate single-cell omics data into virtual cells. These virtual cells may be organized in a template that resembles the tissue (e.g. such as the Drosophila's eye-antennal disc), or into an abstract space (e.g. when cell types are not spatially located). ScoMAP also includes functionalities to derive enhancer-to-gene relationships from the virtual template when mapping both single-cell transcriptomic and epigenomic data into the virtual cells.

Vignettes

Spatial integration of scRNA-seq and scATAC-seq using ScoMAP

Data available here

References

Bravo González-Blas, Carmen, et al. "Identification of genomic enhancers through spatial integration of single-cell transcriptomics and epigenomics." Molecular Systems Biology (2020).

Preprint

Bravo González-Blas, Carmen, et al. "Identification of genomic enhancers through spatial integration of single-cell transcriptomics and epigenomics." bioRxiv (2019).

aertslab/ScoMAP documentation built on Oct. 8, 2021, 1:15 a.m.