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Prostar - Provides a GUI for DAPAR

This package provides a GUI interface for the DAPAR package. The package Prostar (Proteomics statistical analysis with R) is a Bioconductor distributed R package which provides all the necessary functions to analyze quantitative data from label-free proteomics experiments. Contrarily to most other similar R packages, it is endowed with rich and user-friendly graphical interfaces, so that no programming skill is required.

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proteomicsmassspectrometrynormalizationpreprocessingsoftwareguiprostar1

6.33 score 1 stars 13 scripts

DAPAR - Tools for the Differential Analysis of Proteins Abundance with R

The package DAPAR is a Bioconductor distributed R package which provides all the necessary functions to analyze quantitative data from label-free proteomics experiments. Contrarily to most other similar R packages, it is endowed with rich and user-friendly graphical interfaces, so that no programming skill is required (see `Prostar` package).

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proteomicsnormalizationpreprocessingmassspectrometryqualitycontrolgodataimportprostar1

6.32 score 2 stars 1 dependents 21 scripts

DaparToolshed - Tools for the Differential Analysis of Proteins Abundance with R

The package DaparToolshed is a Bioconductor distributed R package which provides all the necessary functions to analyze quantitative data from label-free proteomics experiments. It is an update of our previous package DAPAR and contains more functions to analyze the data and uses MultAssayExperiment and SummarizedExperiment data structures. Contrarily to most other similar R packages, it is endowed with rich and user-friendly graphical interfaces, so that no programming skill is required (see `Prostar` package).

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proteomicsnormalizationpreprocessingmassspectrometryqualitycontroldataimportprostar2

6.16 score 2 stars 36 scripts 75 downloads

imputeLCMD - A Collection of Methods for Left-Censored Missing Data Imputation

A collection of functions for left-censored missing data imputation. Left-censoring is a special case of missing not at random (MNAR) mechanism that generates non-responses in proteomics experiments. The package also contains functions to artificially generate peptide/protein expression data (log-transformed) as random draws from a multivariate Gaussian distribution as well as a function to generate missing data (both randomly and non-randomly). For comparison reasons, the package also contains several wrapper functions for the imputation of non-responses that are missing at random. * New functionality has been added: a hybrid method that allows the imputation of missing values in a more complex scenario where the missing data are both MAR and MNAR.

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5.28 score 3 stars 6 dependents 184 scripts 2.4k downloads

omXplore - Vizualization tools for 'omics' datasets with R

This package contains a collection of functions (written as shiny modules) for the visualisation and the statistical analysis of omics data. These plots can be displayed individually or embedded in a global Shiny module. Additionaly, it is possible to integrate third party modules to the main interface of the package omXplore.

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softwareshinyappsmassspectrometrydatarepresentationguiqualitycontrolprostar2

5.24 score 35 scripts 262 downloads