Welcome to Counter RNAseq Window’s documentation!¶

User Guide¶

Scripts are located in bin directory, and use some modules located in craw directory.

craw_coverage use module craw.annotation to handle annotation file and module craw.coverage to compute coverage this module rely on pysam.
craw_htmp read coverage file generate by craw_coverage and produce graphical representation of data. This script use functions in module craw.heatmap in the form of heatmap. The module craw.heatmap have some capabilities to sort, crop, normalize data before represent them. this module rely on numpy, pandas to manipulate data (craw.heatmap.sort, craw.heatmap.crop_matrix, craw.heatmap.lin_norm, ...) and matplotlib and/or pillow to generate images (craw.heatmap.draw_heatmap , craw.heatmap.draw_raw_image)