protti: Bottom-Up Proteomics and LiP-MS Quality Control and DataAnalysis 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 [aut, cre], Dina Schuster [aut], ETH Zurich [cph, fnd] |
| Maintainer: | Jan-Philipp Quast <quast at imsb.biol.ethz.ch> |
| BugReports: | https://github.com/jpquast/protti/issues |
| License: | MIT + fileLICENSE |
| 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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