MACS3.Signal.HMMR_EM module

Module description:

This code is free software; you can redistribute it and/or modify it under the terms of the BSD License (see the file LICENSE included with the distribution).

class MACS3.Signal.HMMR_EM.HMMR_EM

Bases: object

Main HMMR EM class.

This EM trainer will find the optimal mean and stddev of three of the four modes – mono-nucleosomal, di-nucloeosomal, and three-nucleosomal fragments. Please note that the mean and stddev of the short fragment won’t be optimized in this approach and only rely on the user’s input.

fragMeans

fragStddevs