Name Mode Size
..
TPP2D-defunct.R 100644 0 kb
data.R 100644 3 kb
estimate_params.R 100644 7 kb
fdr_funcs.R 100644 7 kb
full_analysis.R 100644 10 kb
helper_funcs.R 100644 2 kb
import_funcs.R 100644 31 kb
null_bootstrap_funcs.R 100644 13 kb
optimization.R 100644 9 kb
outlier_filtering.R 100644 4 kb
perform_analysis.R 100644 19 kb
plot_funcs.R 100644 14 kb
prepare_data.R 100644 3 kb
sysdata.rda 100644 1 kb
tpp2dExperiment-class.R 100644 2 kb
README.md
# TPP2D [![Build Status](https://travis-ci.org/nkurzaw/TPP2D.svg?branch=master)](https://travis-ci.org/nkurzaw/TPP2D) [![codecov](https://codecov.io/gh/nkurzaw/TPP2D/branch/master/graph/badge.svg)](https://codecov.io/gh/nkurzaw/TPP2D) > Detection of ligand-protein interactions from thermal proteome profiles (DLPTP) by FDR-controlled analysis of 2D-TPP experiments This package contains functions to analyze 2D-thermal proteome profiles using the DLPTP (detection of ligand-protein interactions from thermal proteome profiles) approach. This is done by fitting two nested models (null and alternative) to the thermal profile of each protein and asking whether the alternative model explains the variance in the data significantly better than the null. <img align="right" src="inst/tpp2DHexSticker.png" height="300"/> ## Installation ### Installation from Bioconductor (recommended) The `TPP2D` package has been accepted into Bioconductor! Therefore, the most reliable way to install it is via BiocManager: ```{R} if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("TPP2D") ``` ### Installation of the development version ```{R} BiocManager::install(“nkurzaw/TPP2D”) ``` ## Getting started The easiest way of learning how to use the `TPP2D` package is to browse it's vignette: ```{R} library(TPP2D) browseVignettes("TPP2D") ```