protti: Bottom-Up Proteomics and LiP-MS Quality Control and Data Analysis Tools (original) (raw)
Useful functions and workflows for proteomics quality control and data analysis of both limited proteolysis-coupled mass spectrometry (LiP-MS) (Feng et. al. (2014) <doi:10.1038/nbt.2999>) and regular bottom-up proteomics experiments. Data generated with search tools such as 'Spectronaut', 'MaxQuant' and 'Proteome Discover' can be easily used due to flexibility of functions.
Version: | 0.9.1 |
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Depends: | R (≥ 4.0) |
Imports: | rlang, dplyr, stringr, magrittr, data.table, janitor, progress, purrr, tidyr, ggplot2, forcats, tibble, plotly, ggrepel, utils, grDevices, curl, readr, lifecycle, httr, methods, R.utils, stats |
Suggests: | testthat, covr, knitr, rmarkdown, shiny, r3dmol, proDA, limma, dendextend, pheatmap, heatmaply, furrr, future, parallel, seriation, drc, igraph, stringi, STRINGdb, iq, scales, farver, ggforce, xml2, jsonlite |
Published: | 2024-10-21 |
DOI: | 10.32614/CRAN.package.protti |
Author: | Jan-Philipp Quast |
Maintainer: | Jan-Philipp Quast |
BugReports: | https://github.com/jpquast/protti/issues |
License: | MIT + file |
URL: | https://github.com/jpquast/protti,https://jpquast.github.io/protti/ |
NeedsCompilation: | no |
Citation: | protti citation info |
Materials: | README NEWS |
In views: | Omics |
CRAN checks: | protti results |
Documentation:
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