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Last data update: 2014.03.03

R: Rewrite result from SeqFeatRs assoctuple

rewritetuple

R Documentation

Rewrite result from SeqFeatRs assoctuple

Description

Function to reqrite output from SeqFeatRs assoctuple into an usable form for SeqFeatRs tartan.

Usage

rewritetuple(path_to_file_assoctuple_csv_result = NULL, save_name_csv, 
first_position, second_position, value_position, separator, threshold)

Arguments

`path_to_file_assoctuple_csv_result`	csv file with results from SeqFeatRs assoctuple function. For reference see example file.
`save_name_csv`	name of file to which results are saved in csv format.
`first_position`	column position of first sequence position.
`second_position`	column position of second sequence position.
`value_position`	column position of p-value.
`separator`	separator of csv input file (usually ";", ",", "\t").
`threshold`	p-value threshold, below which data is to be included in result.

Details

Extracts the two sequence positions and p-value if it is below the threshold and generates output csv file for SeqFeatRs tartan with these values.

Author(s)

Bettina Budeus

Examples

#Input file
assoctuple_result <- system.file("extdata", "assoctuple_result.csv", package="SeqFeatR")

#Usage
rewritetuple(
	path_to_file_assoctuple_csv_result=assoctuple_result, 
	save_name_csv="rewritetuple_result.csv", 
	first_position=3, 
	second_position=4, 
	value_position=10, 
	separator="\t", 
	threshold=0.1)

Results


R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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Type 'demo()' for some demos, 'help()' for on-line help, or
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> library(SeqFeatR)
Error in library(SeqFeatR) : there is no package called 'SeqFeatR'
Execution halted