Introduction | Preparation | Data import | Data preprocessing and exploration | Illustrative example | Select data | Define function for model fitting | Fit and plot null models | Fit and plot alternative models | Compute RSS values | Extend the analysis to all proteins | Start fitting | Check example | Compute test statistics | Why we need to estimate the degrees of freedom | How to estimate the degrees of freedom | Detect significantly shifted proteins | Session info | Bibliography
Package: NPARC 1.25.0
Nils Kurzawa
NPARC: Non-parametric analysis of response curves for thermal proteome profiling experiments
Perform non-parametric analysis of response curves as described by Childs, Bach, Franken et al. (2019): Non-parametric analysis of thermal proteome profiles reveals novel drug-binding proteins.
Authors:
NPARC_1.25.0.tar.gz
NPARC_1.25.0.zip(r-4.7)NPARC_1.25.0.zip(r-4.6)NPARC_1.25.0.zip(r-4.5)
NPARC_1.25.0.tgz(r-4.6-any)NPARC_1.25.0.tgz(r-4.5-any)
NPARC_1.25.0.tar.gz(r-4.7-any)NPARC_1.25.0.tar.gz(r-4.6-any)
NPARC_1.25.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
NPARC/json (API)
| # Install 'NPARC' in R: |
| install.packages('NPARC', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Datasets:
- stauro_TPP_data_tidy - TPP dataset of staurosporine treated cells.
On BioConductor:NPARC-1.25.0(bioc 3.24)NPARC-1.24.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:d297b2eaa3. Checks:1 ERROR, 9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 163 | ||
| linux-devel-x86_64 | OK | 356 | ||
| source / vignettes | OK | 334 | ||
| linux-release-x86_64 | OK | 205 | ||
| macos-release-arm64 | OK | 122 | ||
| macos-oldrel-arm64 | OK | 112 | ||
| windows-devel | OK | 106 | ||
| windows-release | OK | 121 | ||
| windows-oldrel | OK | 106 | ||
| wasm-release | OK | 179 |
Exports:fitSingleSigmoidgetParamsNPARCfitNPARCtestrunNPARC
Dependencies:backportsBHBiocParallelbroomclicodetoolscpp11dplyrformatRfutile.loggerfutile.optionsgenericsgluelambda.rlifecyclemagrittrMASSpillarpkgconfigpurrrR6rlangsnowstringistringrtibbletidyrtidyselectutf8vctrswithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Fit sigmoid model | fitSingleSigmoid |
| Control parameters for model fitting | getParams |
| 'NPARC' package | NPARC-package NPARC |
| Fit null and alternative models for Non-parametric analysis of response curves | NPARCfit |
| Perform F-test | NPARCtest |
| Non-parametric analysis of response curves | runNPARC |
| TPP dataset of staurosporine treated cells. | stauro_TPP_data_tidy |