After peakcalling, i want to use igv to see my data(bedgraph). But i can not install IGV. Do you have good suggestion? Thanks!
But i can not install IGV.
Please elaborate on what you tried and what didn't work.
If you are using Ubuntu 18.04 you can do sudo apt install igv
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&
"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.
open a terminal and type igv
igv
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.
igv.sh
-Xmx20g
./igv.sh
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Please elaborate on what you tried and what didn't work.