read_label: Reading labels of regions from label file

In REPTILE: Regulatory DNA Element Prediction

Description

Function to read epimark file from disk and generate data.frame instance. It is used to read epigenomic data from file on disk and generate the input data.frame instance to fuel the model training, prediction and other following steps. Label file is a tab-separated file with a header. The first column contains the id of each region. The second or more columns specify whether a certain region is enhancer (1) or not (0) in a specific sample. Each of these columns corresponds to one sample and the name of the column is the sample name.

Usage

read_label(label_file, query_sample)

Arguments

label_file	name of label file on disk
query_sample	name(s) of sample(s), in which you would like to have label information

Value

an data.frame instance containing label of each region in query samples The possible values and their meanings of a label are:

NA - unknwon (will be ignored)

0 - not enhancer

1 - enhancer

Author(s)

Yupeng He [e-mail]

See Also

read_epigenomic_data

REPTILE documentation built on May 2, 2019, 5:06 a.m.