protti: Bottom-Up Proteomics and LiP-MS Quality Control and Data Analysis Tools
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 |
| 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 <quast at imsb.biol.ethz.ch> |
| BugReports: | https://github.com/jpquast/protti/issues |
| License: | MIT + file LICENSE |
| 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:
Downloads:
| Package source: | protti_0.9.1.tar.gz |
| Windows binaries: | r-devel: protti_0.9.1.zip, r-release: protti_0.9.1.zip, r-oldrel: protti_0.9.1.zip |
| macOS binaries: | r-release (arm64): protti_0.9.1.tgz, r-oldrel (arm64): protti_0.9.1.tgz, r-release (x86_64): protti_0.9.1.tgz, r-oldrel (x86_64): protti_0.9.1.tgz |
| Old sources: | protti archive |
Linking:
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