Package: banffIT 2.0.0
banffIT: Automated Standardized Assignment of the Banff Classification
Assigns standardized diagnoses using the Banff Classification (Category 1 to 6 diagnoses, including Acute and Chronic active T-cell mediated rejection as well as Active, Chronic active, and Chronic antibody mediated rejection). The main function considers a minimal dataset containing biopsies information in a specific format (described by a data dictionary), verifies its content and format (based on the data dictionary), assigns diagnoses, and creates a summary report. The package is developed on the reference guide to the Banff classification of renal allograft pathology Roufosse C, Simmonds N, Clahsen-van Groningen M, et al. A (2018) <doi:10.1097/TP.0000000000002366>. The full description of the Banff classification is available at <https://banfffoundation.org/>.
Authors:
banffIT_2.0.0.tar.gz
banffIT_2.0.0.zip(r-4.7-any)banffIT_2.0.0.zip(r-4.6-any)banffIT_2.0.0.zip(r-4.5-any)
banffIT_2.0.0.tgz(r-4.6-any)banffIT_2.0.0.tgz(r-4.5-any)
banffIT_2.0.0.tar.gz(r-4.7-any)banffIT_2.0.0.tar.gz(r-4.6-any)
banffIT_2.0.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
banffIT/json (API)
| # Install 'banffIT' in R: |
| install.packages('banffIT', repos = c('https://personalizedtransplantcare.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/personalizedtransplantcare/banffit/issues
Last updated from:5b43d59aab. Checks:7 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | NOTE | 150 | ||
| source / vignettes | OK | 204 | ||
| linux-release | NOTE | 196 | ||
| macos-release | NOTE | 188 | ||
| macos-oldrel | NOTE | 154 | ||
| windows-devel | NOTE | 85 | ||
| windows-release | NOTE | 105 | ||
| windows-oldrel | NOTE | 99 | ||
| wasm-release | OK | 136 |
Exports:add_diagnosesbanff_dataset_evaluatebanff_launcherbanffIT_websitecalculate_adequacydataset_cat_as_labelsdataset_summarizeget_banff_dictionaryget_banff_exampleget_banff_templateget_banff_version
Dependencies:askpassbase64encbitbit64bookdownbslibcachemcellrangerclicliprcpp11crayoncredentialscrosstalkcurldescdigestdplyrDTevaluatefabRfarverfastmapfontawesomeforcatsfsgenericsgertggplot2gitcredsgluegtablehavenhighrhmshtmltoolshtmlwidgetshttr2iniisobandjanitorjquerylibjsonliteknitrlabelinglaterlazyevallifecyclelubridatemadshapRmagrittrmemoisemimeopensslotelpakpillarpkgconfigprettyunitsprogresspromisespurrrR6rappdirsRColorBrewerRcppreadrreadxlrematchrlangrmarkdownrprojrootrstudioapiS7sassscalessnakecasestringistringrsystibbletidyrtidyselecttimechangetinytextzdbusethisutf8vctrsviridisLitevroomwhiskerwithrwritexlxfunyamlzip
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Add diagnoses to the input dataset | add_diagnoses |
| Evaluates the format and content of the input dataset | banff_dataset_evaluate |
| Launch the program | banff_launcher |
| Call the online documentation | banffIT_website |
| Calculate adequacy of each biopsy from glomeruli and arteries variables | calculate_adequacy |
| Objects exported from other packages | dataset_cat_as_labels |
| Objects exported from other packages | dataset_summarize |
| Get the Banff data dictionary | get_banff_dictionary |
| Get a dataset example | get_banff_example |
| Get a dataset template | get_banff_template |
| Extract version of the Banff classification | get_banff_version |
