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Bioconductor - HPAanalyze

HPAanalyze

This is the released version of HPAanalyze; for the devel version, see HPAanalyze.

Retrieve and analyze data from the Human Protein Atlas

Bioconductor version: Release (3.21)

Provide functions for retrieving, exploratory analyzing and visualizing the Human Protein Atlas data. HPAanalyze is designed to fullfill 3 main tasks: (1) Import, subsetting and export downloadable datasets; (2) Visualization of downloadable datasets for exploratory analysis; and (3) Working with the individual XML files. This package aims to serve researchers with little programming experience, but also allow power users to use the imported data as desired.

Author: Anh Nhat Tran [aut, cre]

Maintainer: Anh Nhat Tran <trannhatanh89 at gmail.com>

Citation (from within R, enter citation("HPAanalyze")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("HPAanalyze")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("HPAanalyze")
1. Quick-start guide: Acquire and visualize the Human Protein Atlas (HPA) data in one function with HPAanalyze HTML R Script 2. In-depth: Working with Human Protein Atlas (HPA) data in R with HPAanalyze HTML R Script 3. Tutorial: Combine HPAanalyze with your Human Protein Atlas (HPA) queries HTML R Script 4. Tutorial: Working with Human Protein Atlas (HPA) xml files offline HTML R Script 5. Tutorial: Export Human Protein Atlas (HPA) data as JSON HTML R Script 6. Tutorial: Download histology images from the Human Protein Atlas HTML R Script 99. Code for figures from HPAanalyze paper HTML R Script Reference Manual PDF NEWS Text LICENSE Text Details biocViews CellBiology, Proteomics, Software, Visualization Version 1.26.1 In Bioconductor since BioC 3.8 (R-3.5) (6.5 years) License GPL-3 + file LICENSE Depends R (>= 3.5.0) Imports dplyr, openxlsx, ggplot2, tibble, xml2, stats, utils, gridExtra System Requirements URL https://github.com/anhtr/HPAanalyze https://anhtr.github.io/HPAanalyze/ Bug Reports https://github.com/anhtr/HPAanalyze/issues See More Package Archives

Follow Installation instructions to use this package in your R session.

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