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plater

plater: Read, Tidy, and Display Data from Microtiter Plates - Published in JOSS (2016)

https://github.com/ropensci/plater

Science Score: 46.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ○
    DOI references
  • ✓
    Academic publication links
    Links to: zenodo.org
  • ✓
    Committers with academic emails
    1 of 8 committers (12.5%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (18.3%) to scientific vocabulary

Keywords

r r-package rstats

Keywords from Contributors

crypto-currency-exchanges data-access weather-data rainfall defra air-quality air-pollution-levels air-pollution turfjs turf
Last synced: 7 months ago · JSON representation

Repository

Tools to make it easy to work with microtiter plate-shaped data

Basic Info
Statistics
  • Stars: 24
  • Watchers: 4
  • Forks: 4
  • Open Issues: 12
  • Releases: 1
Topics
r r-package rstats
Created about 11 years ago · Last pushed over 1 year ago
Metadata Files
Readme Changelog License

README.Rmd 

---
output:
  md_document:
    variant: gfm
---



```{r, echo = FALSE}
knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  fig.path = "README-"
)
```

# plater

[![R-CMD-check](https://github.com/ropenscilabs/plater/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/ropensci/plater/actions)
[![CRAN version](https://www.r-pkg.org/badges/version/plater)](https://cran.r-project.org/package=plater)
[![CRAN downloads](https://cranlogs.r-pkg.org/badges/grand-total/plater)](https://cran.rstudio.com/web/packages/plater/index.html) [![DOI](https://zenodo.org/badge/32951641.svg)](https://zenodo.org/badge/latestdoi/32951641)
[![](https://badges.ropensci.org/60_status.svg)](https://github.com/ropensci/software-review/issues/60)

plater makes it easy to work with data from experiments performed in plates. It is aimed at scientists and analysts who deal with microtiter plate-based instruments.  

## Installation

plater is available through CRAN. Just run: 

```{r, eval = FALSE}
install.packages("plater") 
```

## Getting your data in

Many scientific instruments (such as plate readers and qPCR machines) produce data in tabular form that mimics a microtiter plate: each cell corresponds to a well as physically laid out on the plate. For experiments like this, it's often easiest to keep records of what was what (control vs. treatment, concentration, sample type, etc.) in a similar plate layout form. 

But data in those dimensions aren't ideal for analysis. That's where `read_plate()` and `add_plate()` come in. 

* `read_plate()` takes data in plate layout form and converts it to a data frame, with one well per row, identified by well name.
* `add_plate()` does the same thing, but merges the new columns into an existing data frame you provide. 

In other words, these functions seamlessly convert plate-shaped data (easy to think about) into tidy data (easy to analyze).  

To make it even easier, if you have multiple plates in an experiment, use `read_plates()` to read them all in and combine them into a single data frame. 

## Seeing your data

Sometimes it's useful to map your data back onto a plate (are the weird outliers all from the same corner of the plate?). For that, there's `view_plate()`, which takes a data frame with one well per row, and lays it out like it's on a plate. 

## Vignette

For a detailed example of how to use `plater`, check out [the vignette.](https://cran.r-project.org/web/packages/plater/vignettes/plater-basics.html)

## Contributing to `plater`

`plater` is developed under a [Contributor Code of Conduct](CONDUCT.md). To contribute to its development, you must agree to abide by its terms. Pull requests for changes are accepted with gratitude. Please include tests as appropriate with any pull requests.  

Requests for new features and reports of bugs or security vulnerabilities can be made [here](https://github.com/ropensci/plater/issues) or emailed to the address listed [here](https://github.com/ropensci/plater/blob/master/DESCRIPTION).

[![ropensci footer](https://ropensci.org//public_images/github_footer.png)](https://ropensci.org/)

Owner

  • Name: rOpenSci
  • Login: ropensci
  • Kind: organization
  • Email: info@ropensci.org
  • Location: Berkeley, CA

GitHub Events

Total
  • Watch event: 1
  • Delete event: 1
  • Issue comment event: 1
  • Push event: 7
  • Pull request event: 1
Last Year
  • Watch event: 1
  • Delete event: 1
  • Issue comment event: 1
  • Push event: 7
  • Pull request event: 1

Committers

Last synced: 8 months ago

All Time
  • Total Commits: 304
  • Total Committers: 8
  • Avg Commits per committer: 38.0
  • Development Distribution Score (DDS): 0.043
Past Year
  • Commits: 8
  • Committers: 2
  • Avg Commits per committer: 4.0
  • Development Distribution Score (DDS): 0.25
Top Committers
Name Email Commits
Sean Hughes s****s@u****u 291
superpuffin y****s@o****m 6
Maëlle Salmon m****n@y****e 2
Scott Chamberlain m****s@g****m 1
Noam Ross n****s@g****m 1
Karthik Ram k****m@g****m 1
rOpenSci Bot m****t@g****m 1
Sean Hughes s****s@f****g 1
Committer Domains (Top 20 + Academic)
fredhutch.org: 1 uw.edu: 1

Issues and Pull Requests

Last synced: 7 months ago

All Time
  • Total issues: 26
  • Total pull requests: 5
  • Average time to close issues: 6 months
  • Average time to close pull requests: 5 days
  • Total issue authors: 5
  • Total pull request authors: 5
  • Average comments per issue: 0.69
  • Average comments per pull request: 3.4
  • Merged pull requests: 4
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 1
  • Average time to close issues: N/A
  • Average time to close pull requests: 6 days
  • Issue authors: 0
  • Pull request authors: 1
  • Average comments per issue: 0
  • Average comments per pull request: 2.0
  • Merged pull requests: 1
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • seaaan (22)
  • ClaireLevy (1)
  • herbstk (1)
  • BradyAJohnston (1)
  • angelovangel (1)
Pull Request Authors
  • maelle (2)
  • superpuffin (1)
  • karthik (1)
  • sckott (1)
  • angelovangel (1)
Top Labels
Issue Labels
bug (4) enhancement (2)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • cran 657 last-month
  • Total docker downloads: 88,618
  • Total dependent packages: 1
  • Total dependent repositories: 1
  • Total versions: 6
  • Total maintainers: 1
cran.r-project.org: plater

Read, Tidy, and Display Data from Microtiter Plates

  • Versions: 6
  • Dependent Packages: 1
  • Dependent Repositories: 1
  • Downloads: 657 Last month
  • Docker Downloads: 88,618
Rankings
Stargazers count: 10.8%
Forks count: 14.4%
Average: 24.1%
Dependent repos count: 24.4%
Dependent packages count: 28.0%
Downloads: 42.8%
Maintainers (1)
smhughes@uw.edu
Last synced: 7 months ago

Dependencies

DESCRIPTION cran
  • R >= 3.1.0 depends
  • dplyr > 0.4.3 imports
  • rlang * imports
  • utils * imports
  • knitr * suggests
  • rmarkdown * suggests
  • testthat * suggests
.github/workflows/R-CMD-check.yaml actions
  • actions/checkout v4 composite
  • r-lib/actions/check-r-package v2 composite
  • r-lib/actions/setup-pandoc v2 composite
  • r-lib/actions/setup-r v2 composite
  • r-lib/actions/setup-r-dependencies v2 composite