Package: promor 0.2.1
promor: Proteomics Data Analysis and Modeling Tools
A comprehensive, user-friendly package for label-free proteomics data analysis and machine learning-based modeling. Data generated from 'MaxQuant' can be easily used to conduct differential expression analysis, build predictive models with top protein candidates, and assess model performance. promor includes a suite of tools for quality control, visualization, missing data imputation (Lazar et. al. (2016) <doi:10.1021/acs.jproteome.5b00981>), differential expression analysis (Ritchie et. al. (2015) <doi:10.1093/nar/gkv007>), and machine learning-based modeling (Kuhn (2008) <doi:10.18637/jss.v028.i05>).
Authors:
promor_0.2.1.tar.gz
promor_0.2.1.zip(r-4.5)promor_0.2.1.zip(r-4.4)promor_0.2.1.zip(r-4.3)
promor_0.2.1.tgz(r-4.4-any)promor_0.2.1.tgz(r-4.3-any)
promor_0.2.1.tar.gz(r-4.5-noble)promor_0.2.1.tar.gz(r-4.4-noble)
promor_0.2.1.tgz(r-4.4-emscripten)promor_0.2.1.tgz(r-4.3-emscripten)
promor.pdf |promor.html✨
promor/json (API)
NEWS
# Install 'promor' in R: |
install.packages('promor', repos = c('https://caranathunge.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/caranathunge/promor/issues
- covid_fit_df - Suvarna et al 2021 LFQ data
- covid_norm_df - Suvarna et al 2021 LFQ data
- ecoli_fit_df - Cox et al 2014 LFQ data
- ecoli_norm_df - Cox et al 2014 LFQ data
biomarkersdifferential-expressionlfqmachine-learningmass-spectrometrymodelingproteomics
Last updated 1 years agofrom:f3ef8441fc. Checks:OK: 3 NOTE: 4. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Nov 08 2024 |
R-4.5-win | NOTE | Nov 08 2024 |
R-4.5-linux | NOTE | Nov 08 2024 |
R-4.4-win | NOTE | Nov 08 2024 |
R-4.4-mac | NOTE | Nov 08 2024 |
R-4.3-win | OK | Nov 08 2024 |
R-4.3-mac | OK | Nov 08 2024 |
Exports:aver_techrepscorr_plotcreate_dffeature_plotfilterbygroup_nafind_depheatmap_deheatmap_naimpute_naimpute_plotnorm_plotnormalize_dataonegroup_onlyperformance_plotpre_processrem_featurerem_sampleroc_plotsplit_datatest_modelstrain_modelsvarimp_plotvolcano_plot
Dependencies:abindbackportsBiobaseBiocGenericsbootbroomcarcarDatacaretclasscliclockcodetoolscolorspacecowplotcpp11data.tableDEoptimRDerivdiagramdigestdoBydoRNGdplyre1071fansifarverforeachFormulafuturefuture.applygenericsggplot2ggrepelglobalsgluegowergridExtragtablehardhatipredisobanditeratorsitertoolsjsonlitekernlabKernSmoothlabelinglaekenlatticelavalifecyclelimmalistenvlme4lmtestlubridatemagrittrMASSMatrixMatrixModelsmgcvmicrobenchmarkminqamissForestModelMetricsmodelrmunsellnaivebayesnlmenloptrnnetnumDerivparallellypbkrtestpcaMethodspillarpkgconfigplyrpROCprodlimprogressrproxypurrrquantregR6randomForestrangerRColorBrewerRcppRcppEigenrecipesreshape2rlangrngtoolsrobustbaserpartscalesshapespSparseMSQUAREMstatmodstringistringrsurvivaltibbletidyrtidyselecttimechangetimeDatetzdbutf8vcdvctrsVIMviridisviridisLitewithrxgboostzoo