I'm seeking recommendations for analyses & dealing with homopolymers? Has anyone used a software script for efficient analyses and generation of "methylation plots" directly from IonTorrent reads?
Hi Andreas,
I am currently writing such software. It should be ready sometime early in 2014. I'll keep you informed.
Dear Jason, thank you for your info & futur update...are you using R therefore? Greetings ANDREAS
I was initially writing it in R and did the simulation work in R to demonstrate the principal, but then I swapped to Python. I'm using the Python pysam package which is a wrapper for samtools. In this instance it's much more efficient and flexible than R.
I've written the main core of the program, now I need to convert it to multicore, debug, write unit tests and package it up for distribution.
Hello Jason, can we please switch to regualr email would like to bring in my colleagues into discussion and like to speak directly.
... ANDREAS
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