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

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Categories

Bio-Informatics

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Additional Project Details

Intended Audience

Science/Research, Education

User Interface

Java Swing

Programming Language

Java, S/R

Registered

2012-10-11