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barcodetrackR

barcodetrackR: an R package and app for tracking cellular barcode experiments.

https://github.com/dunbarlabnih/barcodetrackr

Science Score: 33.0%

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

  • ○
    CITATION.cff file
  • ○
    codemeta.json file
  • ○
    .zenodo.json file
  • ✓
    DOI references
    Found 2 DOI reference(s) in README
  • ✓
    Academic publication links
    Links to: zenodo.org
  • ✓
    Committers with academic emails
    4 of 11 committers (36.4%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (7.6%) to scientific vocabulary
Last synced: 10 months ago · JSON representation

Repository

barcodetrackR: an R package and app for tracking cellular barcode experiments.

Basic Info
  • Host: GitHub
  • Owner: dunbarlabNIH
  • License: cc0-1.0
  • Language: R
  • Default Branch: master
  • Homepage:
  • Size: 112 MB
Statistics
  • Stars: 5
  • Watchers: 2
  • Forks: 5
  • Open Issues: 0
  • Releases: 0
Created over 10 years ago · Last pushed about 5 years ago

https://github.com/dunbarlabNIH/barcodetrackR/blob/master/ 

# barcodetrackR

[barcodetrackR](http://github.com/dunbarlabNIH/barcodetrackR) is an R package developed for the analysis and visualization of clonal tracking data from cellular barcoding experiments.

The R package and functions were created by Diego A. Espinoza, Ryland D. Mortlock, Samson J. Koelle, and others at Cynthia Dunbar's laboratory at the National Heart, Lung, and Blood Institutes of Health. 

## Installation
Three options for installation are available. For the most recent version of the package, install from GitHub using `remotes` or `devtools`. For stable versions of the package, see Bioconductor/Zenodo.

#### 1) GitHub installation
```
remotes::install_github("d93espinoza/barcodetrackR")
```

#### 2) Bioconductor installation
[barcodetrackR Bioconductor page](https://www.bioconductor.org/packages/devel/bioc/html/barcodetrackR.html)
```
BiocManager::install("barcodetrackR")
```

#### 3) Zenodo installation

[![DOI](https://zenodo.org/badge/47579726.svg)](https://zenodo.org/badge/latestdoi/47579726)
```
# v0.99.3 was frozen on Zenodo on 2021-03-16, prior to publication and can be accessed using the above DOI badge.
```


## Usage, and Documentation

Examples and documentation are available at: http://dunbarlabNIH.github.io/barcodetrackR/

Our preprint is available on [bioRxiv](https://doi.org/10.1101/2020.07.23.212787)


## Web App

To run the barcodetrackR app from the web, please visit: https://dunbarlabnih.shinyapps.io/barcode_app/

## Issues

Issues should be addressed to: https://github.com/dunbarlabNIH/barcodetrackR/issues

Owner

  • Name: dunbarlabNIH
  • Login: dunbarlabNIH
  • Kind: organization

GitHub Events

Total
Last Year

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 540
  • Total Committers: 11
  • Avg Commits per committer: 49.091
  • Development Distribution Score (DDS): 0.681
Past Year
  • Commits: 0
  • Committers: 0
  • Avg Commits per committer: 0.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
ryland-mortlock r****k@g****m 172
d93espinoza d****a@g****m 125
Diego Espinoza d****a@D****l 103
Diego Espinoza d****a 54
Diego Espinoza d****a@D****l 46
Diego Espinoza d****a@m****u 21
ryland-mortlock 5****k 6
Diego Espinoza 1****i 6
Diego Espinoza d****a@l****u 4
Diego Espinoza d****a@m****u 2
Diego Espinoza d****a@h****u 1
Committer Domains (Top 20 + Academic)
huntsman-ve703-02266.apn.wlan.private.upenn.edu: 1 modv-ve703-05538.apn.wlan.private.upenn.edu: 1 levy-ve703-00549.apn.wlan.private.upenn.edu: 1 modv-ve703-01064.apn.wlan.private.upenn.edu: 1

Issues and Pull Requests

Last synced: 11 months ago

All Time
  • Total issues: 1
  • Total pull requests: 1
  • Average time to close issues: 25 minutes
  • Average time to close pull requests: less than a minute
  • Total issue authors: 1
  • Total pull request authors: 1
  • Average comments per issue: 4.0
  • Average comments per pull request: 0.0
  • Merged pull requests: 1
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 0
  • Average comments per issue: 0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • loukesio (1)
Pull Request Authors
  • diegoalexespi (1)
Top Labels
Issue Labels
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • bioconductor 9,384 total
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 5
  • Total maintainers: 1
bioconductor.org: barcodetrackR

Functions for Analyzing Cellular Barcoding Data

  • Versions: 5
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 9,384 Total
Rankings
Dependent repos count: 0.0%
Dependent packages count: 0.0%
Average: 27.8%
Downloads: 83.3%
Maintainers (1)
diego.espinoza@pennmedicine.upenn.edu
Last synced: 11 months ago