locStack enables the characterisation and analysis of DNA footprints using high throughput DNase1 DGF sequencing data. Given the locations of the transcription factor binding sites in bed format, locStack can plot the DNase1 cut frequency profiles of the footprints at the single nucleotide resolution. locStack calculates the expected cut frequency profiles at each position in the footprint and the surrounding region, and reports the profile as log2 ratio of observed vs expected DNase1 cut frequencies. The profiles are calculated in a strand specific manner. The matrices reported by the locStack could be used to generate the heatmaps of the profile and the further downstream analysis. locStack could also be used to produce the average composite profile of any ChIP-seq data at the desired genomic locations. The package in written in perl programming language. https://github.com/narekum/locStack
locStack
