ivabudimir / visproteomics

R package for the exploration and visualization of proteomics data obtained with the process of fractionation

visProteomics

visProteomics helps with the exploration and visualization of proteomics data obtained with the process of fractionation. Fractionation of samples is often used in proteomics to improve signal-to-noise ratio and proteome coverage. visProteomics explores attributes of proteins detected in different fractions through both graphical and tabular representation.

Venn/Euler diagrams are widely used for data summarization and there are many plotting tools available. visProteomics defines a complementary tabular function. The resulting data frame summarizes attributes of elements found in different regions of the Venn diagram. This generic function can be used for any data set.

visProteomics package as part of proteomics analysis

Installation

devtools::install_github("ivabudimir/visProteomics")

For installation of vignettes together with the package, add “build_vignettes=TRUE”.

Usage

Please check visProteomics website.

Alternatively, read vignettes merge-fractions and vis-fractions for the exploration and visualization of a fractionated proteomics sample. For the tabular Venn function, read explore-venn vignette.

License

visProteomics is open source software, licensed under GPL-3.