How to calculate effective genome size using unique-kmers.py from khmer program?
0
3
Entering edit mode
6.3 years ago
salamandra ▴ 550

Here says that to know effective/mappable genome size with multimapping reads excluded we need to use 'unique-kmers.py' from 'khmer'. I installed the program, but do not understand the help page and do not know how to use the options. Does anyone know of an example of it's use for calculating effective genome size?

According to help page it is counting kmers. Is counting kmers the same as estimating effective genome size?

effective genome size khmer ChIP-Seq • 2.4k views
ADD COMMENT
0
Entering edit mode
ADD REPLY

Login before adding your answer.

Traffic: 1474 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6