This is the Linux app named FishingCNV to run in Linux online whose latest release can be downloaded as FishingCNV_1.5.3.zip. It can be run online in the free hosting provider OnWorks for workstations.
Download and run online this app named FishingCNV to run in Linux online with OnWorks for free.
Follow these instructions in order to run this app:
- 1. Downloaded this application in your PC.
- 2. Enter in our file manager https://www.onworks.net/myfiles.php?username=XXXXX with the username that you want.
- 3. Upload this application in such filemanager.
- 4. Start the OnWorks Linux online or Windows online emulator or MACOS online emulator from this website.
- 5. From the OnWorks Linux OS you have just started, goto our file manager https://www.onworks.net/myfiles.php?username=XXXXX with the username that you want.
- 6. Download the application, install it and run it.
SCREENSHOTS
Ad
FishingCNV to run in Linux online
DESCRIPTION
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
Audience
Science/Research, Education
User interface
Java Swing
Programming Language
Java, S/R
This is an application that can also be fetched from https://sourceforge.net/projects/fishingcnv/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
