Multi-scale correlation evaluation (MCORE)
General
MCORE (Multi-scale CORrelation Evaluation) is a software for analyzing deep sequencing data sets. It uses the fluctuation spectrum of mapped sequencing reads to quantify and compare spatial patterns on multiple length scales in a model-independent manner. MCORE can be used to dissect the chromatin domain topology by integrating sequencing data from chromatin immunoprecipitation, RNA expression, DNA methylation and chromosome interaction experiments. Furthemore, it can be applied to construct network models that reflect the relationships among these features on different genomic scales. Details on MCORE can be found in the following preprint:
Molitor J, Mallm JP, Rippe K & Erdel F (2017). Retrieving chromatin patterns from deep sequencing data with correlation functions. Biophys J 112, 473-490. doi: 10.1016/j.bpj.2017.01.001 | Abstract | Reprint (10.3 MB) | Article metrics.
Java software downloads
The MCORE software is provided exclusively for non-commerical purposes in academic research as it is without any warranty or liability whatsoever. It is available as Supplement "Data S1. MCORE Java Program and Manual" of the Molitor 2017 publication listed above. Other versions of the software will be made available via Github.
- MCORE Java software with graphical user interface and including manual as a single zip file
- MCORE Java software for running from command line
- MCORE software manual
Test data sets
The test data are provided as zipped bed files
- H3K4me3_rep1_chr1.bed
- H3K4me3_rep2_chr1.bed
- H3K36me3_rep1_chr1.bed
- H3K36me3_rep2_chr1.bed
- Input_rep1_chr1.bed
- Input_rep2_chr1.bed
- Mock_rep1_chr1.bed
- Mock_rep2_chr1.bed
