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How to use igv on ubuntu

After peakcalling, i want to use igv to see my data(bedgraph). But i can not install IGV. Do you have good suggestion? Thanks!

chip-seq
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updated by Arup Ghosh Arup Ghosh • written by mikysyc2016 mikysyc2016

But i can not install IGV.

Please elaborate on what you tried and what didn't work.

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written by WouterDeCoster WouterDeCoster

2 answers

If you are using Ubuntu 18.04 you can do sudo apt install igv

For previous versions you need something like:

sudo apt install default-jre
curl -LO http://data.broadinstitute.org/igv/projects/downloads/2.4/IGV_2.4.10.zip
unzip IGV_2.4.10.zip
cd IGV_2.4.10
sudo ln -s $PWD/igv.sh /usr/local/bin/
igv.sh&
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written by JC JC

"If you are using Ubuntu 18.04 you can do sudo apt install igv". I install it, but do not how to open it and use.

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written by mikysyc2016 mikysyc2016

open a terminal and type igv

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written by JC JC

Download and unzip IGV binary distribution file. Then navigate to IGV_2.4.10 and modify igv.sh and modify the amount of RAM -Xmx20g (change 20) and open a terminal on the same folder to run ./igv.sh.

• 1 views • link
written by Arup Ghosh Arup Ghosh

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