Package: HPAanalyze 1.25.0
Anh Nhat Tran
HPAanalyze: Retrieve and analyze data from the Human Protein Atlas
Provide functions for retrieving, exploratory analyzing and visualizing the Human Protein Atlas data.
Authors:
HPAanalyze_1.25.0.tar.gz
HPAanalyze_1.25.0.zip(r-4.5)HPAanalyze_1.25.0.zip(r-4.4)HPAanalyze_1.25.0.zip(r-4.3)
HPAanalyze_1.25.0.tgz(r-4.4-any)HPAanalyze_1.25.0.tgz(r-4.3-any)
HPAanalyze_1.25.0.tar.gz(r-4.5-noble)HPAanalyze_1.25.0.tar.gz(r-4.4-noble)
HPAanalyze_1.25.0.tgz(r-4.4-emscripten)HPAanalyze_1.25.0.tgz(r-4.3-emscripten)
HPAanalyze.pdf |HPAanalyze.html✨
HPAanalyze/json (API)
NEWS
| # Install 'HPAanalyze' in R: |
| install.packages('HPAanalyze', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/anhtr/hpaanalyze/issues
- hpa_histology_data - HPA histology dataset
On BioConductor:HPAanalyze-1.23.0(bioc 3.20)HPAanalyze-1.22.0(bioc 3.19)
proteomicscellbiologyvisualizationsoftware
Last updated 25 days agofrom:d90d2c8a03. Checks:OK: 1 NOTE: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 30 2024 |
| R-4.5-win | NOTE | Oct 30 2024 |
| R-4.5-linux | NOTE | Oct 30 2024 |
| R-4.4-win | NOTE | Oct 30 2024 |
| R-4.4-mac | NOTE | Oct 30 2024 |
| R-4.3-win | NOTE | Oct 30 2024 |
| R-4.3-mac | NOTE | Oct 30 2024 |
Exports:hpaDownloadhpaExporthpaListParamhpaSubsethpaVishpaVisPathohpaVisSubcellhpaVisTissuehpaXmlhpaXmlAntibodyhpaXmlGethpaXmlProtClasshpaXmlTissueExprhpaXmlTissueExprSum
Dependencies:clicolorspacedplyrfansifarvergenericsggplot2gluegridExtragtableisobandlabelinglatticelifecyclemagrittrMASSMatrixmgcvmunsellnlmeopenxlsxpillarpkgconfigR6RColorBrewerRcpprlangscalesstringitibbletidyselectutf8vctrsviridisLitewithrxml2zip
Quick-start guide: Acquire and visualize the Human Protein Atlas (HPA) data in one function with HPAanalyze
Rendered froma_HPAanalyze_quick_start.Rmdusingknitr::rmarkdownon Oct 30 2024.Last update: 2023-02-22
Started: 2019-11-08
In-depth: Working with Human Protein Atlas (HPA) data in R with HPAanalyze
Rendered fromb_HPAanalyze_indepth.Rmdusingknitr::rmarkdownon Oct 30 2024.Last update: 2023-02-22
Started: 2019-11-08
Tutorial: Combine HPAanalyze with your Human Protein Atlas (HPA) queries
Rendered fromc_HPAanalyze_case_query.Rmdusingknitr::rmarkdownon Oct 30 2024.Last update: 2023-02-22
Started: 2019-11-08
Tutorial: Working with Human Protein Atlas (HPA) xml files offline
Rendered fromd_HPAanalyze_case_offline_xml.Rmdusingknitr::rmarkdownon Oct 30 2024.Last update: 2023-02-22
Started: 2019-11-08
Tutorial: Export Human Protein Atlas (HPA) data as JSON
Rendered frome_HPAanalyze_case_json.Rmdusingknitr::rmarkdownon Oct 30 2024.Last update: 2023-02-22
Started: 2019-11-08
Tutorial: Download histology images from the Human Protein Atlas
Rendered fromf_HPAanalyze_case_images.Rmdusingknitr::rmarkdownon Oct 30 2024.Last update: 2023-03-09
Started: 2019-11-08
Code for figures from HPAanalyze paper
Rendered fromz_HPAanalyze_paper_figures.Rmdusingknitr::rmarkdownon Oct 30 2024.Last update: 2023-02-22
Started: 2019-11-08
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| HPA histology dataset | hpa_histology_data |
| Download datasets | hpaDownload |
| Export the subset data | hpaExport |
| Subset downloaded data | hpaListParam hpaSubset |
| Visualize data in one function | hpaVis |
| Visualize pathology data | hpaVisPatho |
| Visualize subcellular location data | hpaVisSubcell |
| Visualize tissue data | hpaVisTissue |
| Extract details about an individual protein from XML file in one function | hpaXml |
| Extract antibody information | hpaXmlAntibody |
| Download and import xml file | hpaXmlGet |
| Extract protein classes | hpaXmlProtClass |
| Extract tissue expression details | hpaXmlTissueExpr |
| Extract tissue expression and download images | hpaXmlTissueExprSum |
