in silico read normalization

[Benedikt Athmer]

Dear Trans-ABySS team,

I'm working on Illumina 2x150 PE reads (300 Mio.) and I would like to know how can I perform an in-silico normalization to reduce the amount of computational demand.
It is possible to use the Trinity in-silico normalization using 25-kmer length to reduce the number of reads?

Best regads,

Benedikt

[Ka Ming Nip]

You may use that or you could just run diginorm from the khmer package:
http://khmer-protocols.readthedocs.io/en/latest/mrnaseq/2-diginorm.html

Ka Ming
--
Ka Ming Nip
Graduate Student | Dr. Inanc Birol Lab (BTL)
Canada's Michael Smith Genome Sciences Centre
________________________________________
From: trans...@googlegroups.com [trans...@googlegroups.com] On Behalf Of Benedikt Athmer [benedik...@gmail.com]
Sent: May 3, 2018 9:00 AM
To: Trans-ABySS
Subject: in silico read normalization

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