get_targetp: Predicts sub cellular location of eukaryotic proteins

In computational-genomics-lab/motifFUN: Searching user-defined motif along with functional annotation filtering criteria

Description

This function predicts the sub cellular location of eukaryotic proteins. The location assignment is based on the predicted presence of any of the N-terminal presequences:chloroplast transit peptide (cTP), mitochondrial targeting peptide (mTP) or secretory pathway signal peptide (SP).

Usage

get_targetp(targetp.path = NULL, organismgroup = NULL, file = NULL)

Arguments

targetp.path	Localpath of folder containing target binary excutable file or the excutable file itself, if path not specified, then targetp must be in program search path.
organismgroup	Please provide oraganismgroup for targetp: -P|-N-use plant/non-plant networks mandatory, -c-include cleavage site predictions, -h-print this note and exit, -v-print ve rsion info and exit, -p-chloroplast prediction cutoff, default, -s-secretory pathway prediction cutoff, default, -t-mitochondrial prediction cutoff, default, -o-other location pred iction cutoff, default.
file	Please provide fasta input file

Value

Returns dataframe which contains summary of targetp result file

@examples

get_targetp(targetp.path = NULL, organismgroup = NULL, file = input_file)

computational-genomics-lab/motifFUN documentation built on June 4, 2019, 7:52 a.m.