PWM-class: A class that represents a Position Weight Matrix (PWM)

In PWMEnrich: PWM enrichment analysis

Description

A class that represents a Position Weight Matrix (PWM)

Slots

id:

a systematic ID given to this PWM, could include the source, version, etc

name:

the name of the transcription factor (TF) to which the PWM corresponds to

pfm:

Position Frequency Matrix (PFM) from which the PWM is derived

prior.params:

Defines prior frequencies of the four bases (A,C,G,T), a named vector. These will be added to individual values for the PFM and at the same time used as background probabilities

pwm:

Final Position Weight Matrix (PWM) constructed using prior.params with logarithm base 2

PWMEnrich documentation built on Nov. 8, 2020, 7:45 p.m.