FishingCNV, a software tool developed at McGill University, is a tool for comprehensive analysis of rare copy number variations in high-throughput exome sequencing data. The inputs are standard coverage files produced by Genome Analysis ToolKit (GATK), and the output is a file containing putative CNVs.

The program comes in 2 different releases
* GUI version (FishingCNV_X.X.X.zip)
* Command line version (FishingCNV_X.X_pipeline)

Browse through our files to find the different releases.

Features

  • Graphical User Interface
  • CNV analysis for matched test/control (e.g. cancer/tumor)
  • CNV analysis for non-matched samples
  • Batch-effect removal within the control set
  • Tab-delimited output can be viewed in Excel
  • Additional output file can be visualized in IGV
  • Distribution plots and outlier plots for each chromosome

Project Samples

A typical output file containing putative CNVs ranked by statistical confidence An overview of CNVs in a typical sample as viewed in IGV Screen shot of the unpaired analysis feature

Project Activity

See All Activity >

Categories

Bio-Informatics

License

GNU General Public License version 3.0 (GPLv3)

Follow FishingCNV

FishingCNV Web Site

You Might Also Like
Simplify Purchasing For Your Business Icon
Simplify Purchasing For Your Business

Manage what you buy and how you buy it with Order.co, so you have control over your time and money spent.

Simplify every aspect of buying for your business in Order.co. From sourcing products to scaling purchasing across locations to automating your AP and approvals workstreams, Order.co is the platform of choice for growing businesses.
Learn More
Rate This Project
Login To Rate This Project

User Reviews

Be the first to post a review of FishingCNV!

Additional Project Details

Intended Audience

Science/Research, Education

User Interface

Java Swing

Programming Language

Java, S/R

Related Categories

Java Bio-Informatics Software, S/R Bio-Informatics Software

Registered

2012-10-11
Report inappropriate content