https://github.com/mcanouil/nacho
NAnostring quality Control dasHbOard
https://github.com/mcanouil/nacho
mirna mrna nanostring normalisation quality-control r-package r-stats rstats shiny
Last synced: 7 months ago
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NAnostring quality Control dasHbOard
- Host: GitHub
- URL: https://github.com/mcanouil/nacho
- Owner: mcanouil
- License: gpl-3.0
- Created: 2019-03-22T12:37:13.000Z (about 6 years ago)
- Default Branch: main
- Last Pushed: 2024-01-12T19:25:36.000Z (over 1 year ago)
- Last Synced: 2024-11-07T23:42:59.042Z (7 months ago)
- Topics: mirna, mrna, nanostring, normalisation, quality-control, r-package, r-stats, rstats, shiny
- Language: R
- Homepage: https://m.canouil.dev/NACHO/
- Size: 73.2 MB
- Stars: 8
- Watchers: 3
- Forks: 4
- Open Issues: 0
-
Metadata Files:
- Readme: README.Rmd
- Contributing: .github/CONTRIBUTING.md
- Funding: .github/FUNDING.yml
- License: LICENSE.md
- Code of conduct: .github/CODE_OF_CONDUCT.md
- Support: .github/SUPPORT.md
Awesome Lists containing this project
README
---
output: github_document
---
```{r}
#| echo: false
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>",
fig.path = "man/figures/README-",
out.width = "100%"
)
if (file.exists("man/figures/nacho_app.mp4")) {
system("ffmpeg -i man/figures/nacho_app.mp4 -vf fps=1 man/figures/nacho_app%04d.png")
gif_app <- gifski::gifski(
png_files = list.files(
path = dirname(knitr::opts_chunk$get("fig.path")),
pattern = "nacho_app.*.png",
full.names = TRUE
),
gif_file = paste0(knitr::opts_chunk$get("fig.path"), "nacho_app.gif"),
width = 1920 * 2 / 3,
height = 1080 * 2 / 3,
delay = 0.50,
loop = TRUE,
progress = FALSE
)
unlink(list.files(
path = dirname(knitr::opts_chunk$get("fig.path")),
pattern = "nacho_app.*.png",
full.names = TRUE
))
}
if (file.exists(paste0(knitr::opts_chunk$get("fig.path"), "nacho_app.gif"))) {
gif_app <- paste0(knitr::opts_chunk$get("fig.path"), "nacho_app.gif")
} else {
gif_app <- paste0(knitr::opts_chunk$get("fig.path"), "app.png")
}
```
# NAnostring quality Control dasHbOard 
[](https://lifecycle.r-lib.org/articles/stages.html)
[](https://github.com/mcanouil/NACHO)
[](https://app.codecov.io/gh/mcanouil/NACHO?branch=main)
[](https://github.com/mcanouil/NACHO/actions)
[](https://cran.r-project.org/package=NACHO)
[](https://cran.r-project.org/web/checks/check_results_NACHO.html)
[](https://cran.r-project.org/package=NACHO)
## Installation
```{r}
#| eval: false
# Install NACHO from CRAN:
install.packages("NACHO")
# Or the development version from GitHub:
# install.packages("remotes")
remotes::install_github("mcanouil/NACHO")
```
## Overview
```{r}
#| echo: false
#| results: asis
cat(readLines(file.path("inst", "app", "www", "about-nacho.md"))[-c(1, 2)], sep = "\n")
```
### Shiny Application ([demo](https://mcanouil.shinyapps.io/NACHO_data/))
```{r}
#| eval: false
shiny::runApp(system.file("app", package = "NACHO"))
```
```{r}
#| echo: false
knitr::include_graphics(sub(".*/man", "man", gif_app))
```
```{r}
#| eval: false
visualise(GSE74821)
```
## Citing NACHO
```{r}
#| echo: false
#| results: asis
print(citation("NACHO"), "html")
```
```{r}
#| echo: false
#| comment: ""
print(citation("NACHO"), "bibtex")
```
---
## Getting help
If you encounter a clear bug, please file a minimal reproducible example on [github](https://github.com/mcanouil/NACHO/issues).
For questions and other discussion, please contact the package maintainer.
## Code of Conduct
Please note that this project is released with a [Contributor Code of Conduct](https://contributor-covenant.org/version/2/0/CODE_OF_CONDUCT.html).
By contributing to this project, you agree to abide by its terms.