R Graphical Manual

Last data update: 2014.03.03

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Results 1 - 10 of 63 found.
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predicted2pwm (Package: cobindR) :

function converts for each input PWM the predicted TFBS hits into a PWM. Function is intended to be used together with the sequence logo creation function 'plot.tfbslogo'.

● Data Source: BioConductor
● Keywords: manip, methods
● Alias: predicted2pwm, predicted2pwm,cobindr-method, predicted2pwm-method
● 0 images

pseudocount (Package: cobindR) :

pseudocount of cobindR configuration object. Set to 10 as default

● Data Source: BioConductor
● Keywords: accessor, cobindR, configuration
● Alias: pseudocount, pseudocount,configuration-method, pseudocount<-, pseudocount<-,configuration,character-method
● 0 images

rtfbs (Package: cobindR) :

function performs TFBS prediction using the package rtfbs

● Data Source: BioConductor
● Keywords: iteration, manip, methods
● Alias: rtfbs, rtfbs,cobindr-method, rtfbs-method
● 1 images

search.gadem (Package: cobindR) :

function performs TFBS prediction denovo or based on transfac / jaspar matrices pwms using rGADEM. If append=T, predicted hits are appended to the hits in the input object.

● Data Source: BioConductor
● Keywords: iteration, manip, methods
● Alias: search.gadem, search.gadem,cobindr-method, search.gadem-method
● 0 images

search.pwm (Package: cobindR) :

function to predict transcription factor binding sites using the method matchPWM from package Biostrings

● Data Source: BioConductor
● Keywords: iteration, manip, methods
● Alias: search.pwm, search.pwm,cobindr-method, search.pwm-method
● 1 images

seqObj (Package: cobindR) :

cobindR SeqObj object constructor

● Data Source: BioConductor
● Keywords: cobindR, configuration, constructor
● Alias: seqObj, seqObj,DNAString,character,character,character,character,character-method, seqObj-method
● 0 images

sequence (Package: cobindR) :

returns sequence of cobindR seqObj object.

● Data Source: BioConductor
● Keywords: SeqObj, accessor, cobindR
● Alias: sequence, sequence,SeqObj-method, sequence<-, sequence<-,SeqObj,DNAString-method
● 0 images

sequence_origin (Package: cobindR) :

returns sequence_origin of cobindR configuration object.

● Data Source: BioConductor
● Keywords: accessor, cobindR, configuration
● Alias: sequence_origin, sequence_origin,configuration-method, sequence_origin<-, sequence_origin<-,configuration,character-method
● 0 images

sequence_source (Package: cobindR) :

returns sequence_source of cobindR configuration object.

● Data Source: BioConductor
● Keywords: accessor, cobindR, configuration
● Alias: sequence_source, sequence_source,configuration-method, sequence_source<-, sequence_source<-,configuration,character-method
● 0 images

sequence_type (Package: cobindR) :

sequence type of cobindR configuration object

● Data Source: BioConductor
● Keywords: accessor, cobindR, configuration
● Alias: sequence_type, sequence_type,configuration-method, sequence_type<-, sequence_type<-,configuration,character-method
● 0 images