Introduction | Part 1 | Part 2 | Part 3 | Additional Analysis
Package: reconstructKM 0.4.0
reconstructKM: Reconstruct Individual-Level Data from Published KM Plots
Functions for reconstructing individual-level data (time, status, arm) from Kaplan-MEIER curves published in academic journals (e.g. NEJM, JCO, JAMA). The individual-level data can be used for re-analysis, meta-analysis, methodology development, etc. This package was used to generate the data for commentary such as Sun, Rich, & Wei (2018) <doi:10.1056/NEJMc1808567>. Please see the vignette for a quickstart guide.
Authors:
reconstructKM_0.4.0.tar.gz
reconstructKM_0.4.0.zip(r-4.7-any)reconstructKM_0.4.0.zip(r-4.6-any)reconstructKM_0.4.0.zip(r-4.5-any)
reconstructKM_0.4.0.tgz(r-4.6-any)reconstructKM_0.4.0.tgz(r-4.5-any)
reconstructKM_0.4.0.tar.gz(r-4.7-any)reconstructKM_0.4.0.tar.gz(r-4.6-any)
reconstructKM_0.4.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
reconstructKM/json (API)
| # Install 'reconstructKM' in R: |
| install.packages('reconstructKM', repos = c('https://ryansunwork.r-universe.dev', 'https://cloud.r-project.org')) |
Datasets:
- pbo_clicks - Pembrolizumab example OS KM reconstruction clicks - placebo arm
- pbo_NAR - Pembrolizumab example OS NAR table - placebo arm
- pembro_clicks - Pembrolizumab example OS KM reconstruction clicks - pembrolizumab arm
- pembro_NAR - Pembrolizumab example OS NAR table - pembrolizumab arm
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:1d3ab046c3. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 176 | ||
| source / vignettes | OK | 250 | ||
| linux-release-x86_64 | OK | 185 | ||
| macos-release-arm64 | OK | 105 | ||
| macos-oldrel-arm64 | OK | 120 | ||
| windows-devel | OK | 139 | ||
| windows-release | OK | 107 | ||
| windows-oldrel | OK | 189 | ||
| wasm-release | OK | 133 |
Exports:add_clicksCIC_reconstructformat_raw_tabsintegrate_survdatKM_reconstructnonparam_rmstprint_cox_outputsremove_clicksweibull_rmstweimle1
Dependencies:abindbackportsbootbroomcarcarDataclicolorspacecommonmarkcorrplotcowplotcpp11curlDerivdoBydplyrexactRankTestsfarverforecastFormulafracdiffgenericsggplot2ggpubrggrepelggsciggsignifggtextgluegridExtragridtextgtableisobandjpeglabelinglatticelifecyclelitedownlme4lmtestmagrittrmarkdownMASSMatrixMatrixModelsmaxstatmgcvminqamodelrmvtnormnlmenloptrnnetnumDerivpbkrtestpillarpkgconfigpngpolynompurrrquantregR6rbibutilsRColorBrewerRcppRcppArmadilloRcppEigenRdpackreformulasrlangrstatixS7scalesSparseMstringistringrsurvivalsurvminertibbletidyrtidyselecttimeDateurcautf8vctrsviridisLitewithrxfunxml2zoo
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Add clicks to subdistribution curves for reconstructing CIC | add_clicks |
| Reconstruct cumulative incidence curves | CIC_reconstruct |
| Format raw survival and NAR tables so they are ready for reconstruction algorithm | format_raw_tabs |
| Integrate area under curve for single arm | integrate_survdat |
| Reconstruct digitized Kaplan-Meier curves and generate invididual patient data | KM_reconstruct |
| Calculate RMST for each arm as well as contrast | nonparam_rmst |
| Pembrolizumab example OS KM reconstruction clicks - placebo arm | pbo_clicks |
| Pembrolizumab example OS NAR table - placebo arm | pbo_NAR |
| Pembrolizumab example OS KM reconstruction clicks - pembrolizumab arm | pembro_clicks |
| Pembrolizumab example OS NAR table - pembrolizumab arm | pembro_NAR |
| Print outputs from Cox regression | print_cox_outputs |
| Remove clicks from subdistribution curves for reconstructing CIC | remove_clicks |
| RMST using Weibull fit | weibull_rmst |
| Fit Weibull distribution parameters using MLE | weimle1 |
