makeInteractTrack-deprecated {rliger}

[Deprecated] Export predicted gene-pair interaction

Description

Export the predicted gene-pair interactions calculated by upstream function linkGenesAndPeaks into an Interact Track file which is compatible with UCSC Genome Browser.

Arguments

corr.mat

A sparse matrix of correlation with peak names as rows and gene names as columns.

path_to_coords

Path to the gene coordinates file.

genes.list

Character vector of gene names to be exported. Default NULL uses all genes available in corrMat.

output_path

Path of filename where the output file will be stored. If a folder, a file named "Interact_Track.bed" will be created. Default current working directory.

Value

No return value. A file located at outputPath will be created.

See Also

rliger-deprecated, exportInteractTrack