RunClassifier: Run FIT improvement prediction classifier

Description Usage Arguments

Description

The SVM classifier predicts whether FIT will be able to improve a specific mouse data.

Usage

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RunClassifier(MouseData = NULL, MouseFile = NULL, DataType = NULL,
  qval = 0.1, FC = 0.15, verbose = F)

Arguments

MouseData

The pre-processed mouse dataset, or NULL in case MouseFIle ise given

MouseFile

File name that includes the mouse data (log expression per gene for all disease and control sampels), in CSV format. NULL in case MouseData is given

DataType

Either "microarray" or "rnaseq", depending on the technology by which the data was assayed. NULL if MouseData is given

qval

the q-value cuttoff the user will use to interpret FIT's predictions. (default= 0.1)

FC

the fold-change cuttoff the user will use to interpret FIT's predictions, given as fraction from the top. For example, 0.15 denotes the top 15% of genes with highest fold-change. (default= 0.15)

verbose

A logical value defining whether detialed messages should be printed.


RachellyN/FIT documentation built on May 16, 2019, 6:59 p.m.