HT-seq CPTAC,RNA-seq
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HT-seq count Star-count RNA-seq • 292 views
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Why do you need HT-seq? The current official GDC pipeline gives you the counts from STAR directly -- just use those.

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Thanks I dont know how to download STAR then. it gives one file for each patient, but I need them together as one big file. I have a python script for the HT-seq count to merge them while downloading, but it does not work for STAR.

Is there any python or R script to download and merge STAR?

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Modify your existing python code to get it to work for the STAR - Counts files.

Consider that your homework. :)

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Sorry I have no idea about coding and python That is why I asked my Q here to see if anyone can help.

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Sorry, but we aren't going to write code for you. We can help you figure out errors in your code but we aren't going to do your work for you.

I recommend you either learn python or you ask someone at your workplace who's willing to do coding work for you (e.g. if you're working at a university, contact a bioinformatics core facility member).

There are people who work full time (and get paid) doing these things; people on biostars are not such people.

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