This rocStats wrapper superimposes ROC curves on a plot to analyse the output performance of a method-A, and optionally compare it with that of a method-B, based on some ground thruth labels.
● Data Source:
BioConductor
● Keywords:
● Alias: compareROC
●
1 images
|
demTp63Gp1
(Package: gprege) :
gprege on TP63 expression time-series.
Demo script of Gaussian Process Regression and Estimation of Gene Expression on TP63 time-series data (see gprege.m). See Kalaitzis & Lawrence (2011) for a detailed discussion of the ranking algorithm and dataset used.
● Data Source:
BioConductor
● Keywords:
● Alias: demTp63Gp1
●
0 images
|
exhaustivePlot
(Package: gprege) :
Plot of the LML function by exhaustive search.
Exhaustively searches the hyperparameter space by a grid, whose resolution is passed as an argument, and plots the LML function for every point in the space.
● Data Source:
BioConductor
● Keywords:
● Alias: exhaustivePlot
●
0 images
|
|
This package implements the method of Kalaitzis and Lawrence (2011) for Gaussian process modelling gene expression time-series data. The method can be used to filter quiet genes and quantify differential expression in time-series expression ratios.
● Data Source:
BioConductor
● Keywords: package
● Alias: gprege-package
●
0 images
|
gprege
(Package: gprege) :
Gaussian process ranking and estimation of gene expression time-series
Fits two GPs with the an RBF (+ noise diagonal) kernel on each profile. One GP kernel is initialised wih a short lengthscale hyperparameter, signal variance as the observed variance and a zero noise variance. It is optimised via scaled conjugate gradients (netlab). The other GP has fixed hyperparameters with a zero inverse-width, zero signal variance and noise variance as the observed variance. The log-ratio of marginal likelihoods of the two hypotheses acts as a score of differential expression for the profile. Comparison via ROC curves is performed against BATS (Angelini et.al, 2007). See Kalaitzis & Lawrence (2011) for a detailed discussion of the ranking algorithm and dataset used.
● Data Source:
BioConductor
● Keywords:
● Alias: gprege
●
1 images
|
rocStats
(Package: gprege) :
Make ROC curve data.
Computes the points on an ROC curve by varying a threshold on the sorted outputs of the method in question.
● Data Source:
BioConductor
● Keywords:
● Alias: rocStats
●
0 images
|
providing 
.