SD-Genomics / DeviCNV

Detection and Visualization of Exon-Level Copy Number Variants in Targeted Next Generation Sequencing Data

DeviCNV

Detection and Visualization of Exon-Level Copy Number Variants in Targeted Next Generation Sequencing Data

Environment

DeviCNV runs on Python 2.7 and R 3.2.0.

Python dependencies

• sys
• intervaltree
• intervaltree_bio
• numpy
• operator
• random
• pysam
• pyvcf
• scipy

R dependencies

• ggplot2
• PSCBS

Installation

To install DeviCNV, simply download 9 scripts in “Code” directory.

Documentation

PDF documentation is included in the package.

• DeviCNV1.5 Manual20171101.pdf

Version description

We uploaded DeviCNV_v1.5.1 in 26/06/2019 We fixed some bugs in code.

1. Delete codes for running with Slurm Workload Manager in "DeviCNV_Example.runningScript.sh"
2. Fix codes for selecting large segments in "python.scoreCNV.py"