CRAN/E | MSiP

MSiP

'MassSpectrometry' Interaction Prediction

Installation

About

The 'MSiP' is a computational approach to predict protein-protein interactions from large-scale affinity purification mass 'spectrometry' (AP-MS) data. This approach includes both spoke and matrix models for interpreting AP-MS data in a network context. The "spoke" model considers only bait-prey interactions, whereas the "matrix" model assumes that each of the identified proteins (baits and prey) in a given AP-MS experiment interacts with each of the others. The spoke model has a high false-negative rate, whereas the matrix model has a high false-positive rate. Although, both statistical models have merits, a combination of both models has shown to increase the performance of machine learning classifiers in terms of their capabilities in discrimination between true and false positive interactions.

Key Metrics

Version 1.3.7
R ≥ 3.6.0
Published 2021-06-17 1016 days ago
Needs compilation? no
License GPL-3
CRAN checks MSiP results

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Maintainer

Maintainer

Matineh Rahmatbakhsh

matinerb.94@gmail.com

Authors

Matineh Rahmatbakhsh

aut / cre

Material

Reference manual
Package source

Vignettes

MSiP tutorial

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Depends

R ≥ 3.6.0

Imports

dplyr ≥ 1.0.6
tibble ≥ 3.1.2
tidyr ≥ 1.1.3
magrittr ≥ 2.0.1
plyr ≥ 1.8.6
PRROC ≥ 1.3.1
caret ≥ 6.0.88
e1071 ≥ 1.7.7
mice ≥ 3.13.0
pROC ≥1.17.0.1
ranger ≥ 0.12.1

Suggests

knitr
markdown