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README.Rmd
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---
output: github_document
---
<!-- README.md is generated from README.Rmd. Please edit that file -->
```{r, include = FALSE}
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>",
fig.path = "man/figures/README-",
out.width = "100%"
)
```
# shinycsv
<!-- badges: start -->
[](https://lifecycle.r-lib.org/articles/stages.html#stable)
[](https://codecov.io/gh/LieberInstitute/shinycsv?branch=devel)
[](https://github.com/LieberInstitute/shinycsv/actions/workflows/check-bioc.yml)
[](https://github.com/LieberInstitute/shinycsv/issues)
[](https://github.com/LieberInstitute/shinycsv/pulls)
[](https://zenodo.org/badge/latestdoi/72884509)
<!-- badges: end -->
This package allows interactive explorations of CSV files, data.frame objects stored in a Rdata file (only one data.frame stored), or other types of table files. You can view this shiny app deployed at [libd.shinyapps.io/shinycsv](https://libd.shinyapps.io/shinycsv/). If you are interested in the [showcase mode](http://shiny.rstudio.com/articles/display-modes.html), then check out [libd.shinyapps.io/shinycsv-showcase](https://libd.shinyapps.io/shinycsv-showcase/).
The vignette for this package is available at [LieberInstitute/shinycsv](http://Lieberinstitute.github.io/shinycsv/).
## Installation instructions
Get the latest stable `R` release from [CRAN](http://cran.r-project.org/). Then install `shinycsv` from [GitHub](https://github.com/LieberInstitute/shinycsv) with:
```{r 'install_dev', eval = FALSE}
BiocManager::install("LieberInstitute/shinycsv")
```
## Citation
Below is the citation output from using `citation('shinycsv')` in R. Please
run this yourself to check for any updates on how to cite __shinycsv__.
```{r 'citation', eval = requireNamespace('shinycsv')}
print(citation("shinycsv"), bibtex = TRUE)
```
Please note that the `shinycsv` was only made possible thanks to many other R and bioinformatics software authors, which are cited either in the vignettes and/or the paper(s) describing this package.
## Code of Conduct
Please note that the `shinycsv` project is released with a [Contributor Code of Conduct](http://bioconductor.org/about/code-of-conduct/). By contributing to this project, you agree to abide by its terms.
## Development tools
* Continuous code testing is possible thanks to [GitHub actions](https://www.tidyverse.org/blog/2020/04/usethis-1-6-0/) through `r BiocStyle::CRANpkg('usethis')`, `r BiocStyle::CRANpkg('remotes')`, and `r BiocStyle::CRANpkg('rcmdcheck')` customized to use [Bioconductor's docker containers](https://www.bioconductor.org/help/docker/) and `r BiocStyle::Biocpkg('BiocCheck')`.
* Code coverage assessment is possible thanks to [codecov](https://codecov.io/gh) and `r BiocStyle::CRANpkg('covr')`.
* The [documentation website](http://LieberInstitute.github.io/shinycsv) is automatically updated thanks to `r BiocStyle::CRANpkg('pkgdown')`.
* The code is styled automatically thanks to `r BiocStyle::CRANpkg('styler')`.
* The documentation is formatted thanks to `r BiocStyle::CRANpkg('devtools')` and `r BiocStyle::CRANpkg('roxygen2')`.
For more details, check the `dev` directory.
This package was developed using `r BiocStyle::Biocpkg('biocthis')`.