I need to run custom code to analyze the exome data, which may take days or weeks. I ran Jupyter notebook but after disconnection the job just gone. What is the best way to do this? Is there a way to submit the job to the background?
The easiest way to get start on running non-interactive job is via swiss-army-knife tool. See video how to run GWAS using swiss army knife here. https://youtu.be/762PVlyZJ-U?t=1318
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The easiest way to get start on running non-interactive job is via swiss-army-knife tool. See video how to run GWAS using swiss army knife here. https://youtu.be/762PVlyZJ-U?t=1318
Or you may start with this tutorial from @Phil Greer? here https://community.dnanexus.com/s/question/0D5t00000416OTeCAM/performing-gwas-on-rap-using-dx-toolkit-and-swissarmyknife
But what I need to do is to run my own python with specific algorithm to do the analysis. Is there other options?
it is not a standard GWAS or other implemented approach.
You can add both python script and your exome file as input for swiss-army-knife. Then you can run your python script on those exome files.
@Sai Zhang? This post elaborate more in detail how to do this.
https://community.dnanexus.com/s/question/0D5t000004141fvCAA/hello-i-am-wondering-if-its-possible-to-input-a-script-into-swissarmyknife-instead-of-individual-commands-if-so-how-would-i-do-this
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