dawe / dsptool

A general DSP tool for processing genomic data

DSPtool

Table of Contents

Usage

Required Extensions:

There is a list of required packages to run the DSPtool, It is suggested that use a virtual environment to prevent any possible conflict between packages. It is possible to download the packages separately or use the following command and "dsptool.yml" file to create a new environment with all the external packages.

conda env create -f dsptool.yml --name dsptool

Example Files

BigWig file ENCFF409PGL.bw

Bed file ENCFF992MBC.bed

Basic usage is as follows:

python3.7 filter-module.py [-h] -i path/inputfile.bw -o path/output.bw [-f FILTER] [-s SIZE] [-r REGION] [-l INTERVAL] [-S STEP] [-e ENTIRE] [--list-filters] [-V VERSION]

>>> python3.7  filter-module.py -i ENCFF409PGL.bw -o MyResult.bw -l ENCFF992MBC.bed