generate_enzyme_file: generate enzyme file

Description Arguments Details

View source: R/run_hicpro.R

Description

help user generate enzyme file

Arguments

enzyme

the restriction enzyme name.

enzymesite

the restriction enzyme cutting sites

chrom_file

the chromatin information file

enzymedir

the output dir of this function

enzymeoverhangs5

5' overhangs on the DNA resulted from the cutting

genomeName

the name of genome

Details

this function is used to generate restriction fragment annotation files. and some annotation files were generated in https://github.com/hechao0407/HBP/tree/master/annotation

can be used as following command: generate_enzyme_file(enzyme="DpnII",enzymesite="GATC",chrom_file="chrom_dm3.sizes",enzymedir="annotation",enzymeoverhangs5=0,genomeName="dm3")


HBP documentation built on July 7, 2017, 9:02 a.m.