Data

Tools

Indexes

Applications

Experiments

Open Source Science

https://github.com/broadinstitute/single_cell_portal

Tutorials, workflows, and convenience scripts for Single Cell Portal

https://github.com/broadinstitute/single_cell_portal

Science Score: 36.0%

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
  • ✓
    Committers with academic emails
    7 of 12 committers (58.3%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (10.8%) to scientific vocabulary

Keywords

human-cell-atlas rna-seq-analysis single-cell-genomics
Last synced: 9 months ago · JSON representation

Repository

Tutorials, workflows, and convenience scripts for Single Cell Portal

Basic Info
Statistics
  • Stars: 50
  • Watchers: 18
  • Forks: 25
  • Open Issues: 2
  • Releases: 4
Topics
human-cell-atlas rna-seq-analysis single-cell-genomics
Created almost 10 years ago · Last pushed over 2 years ago
Metadata Files
Readme License

README.md

Single-Cell Portal

Build status

Hello and thank you for using the Single-Cell Portal. We hope the portal will contribute to open science by enabling visualizing and sharing scientific insight and data surrounding single-cell RNA-Seq.

Thank you for being a part of this open science effort!

Site URL

To visit the portal please go to: https://portals.broadinstitute.org/single_cell

Tutorials

For tutorials and descriptions of files please go to: https://github.com/broadinstitute/singlecellportal/wiki

Convenience Scripts

Scripts to help when working with data files for the portal are made available in this repo and require Python 3. Using these scripts to verify the format of input files can be found at https://github.com/broadinstitute/singlecellportal/wiki/File-Definitions.

To get set up to use these scripts: git clone https://github.com/broadinstitute/single_cell_portal.git cd single_cell_portal python3 -m venv env --copies source env/bin/activate pip install -r requirements.txt

Then install and initialize Google Cloud SDK on your machine; many scripts here require it.

Reporting Bugs and Improvements

To report a bug or suggest an improvement please create a new issue at: https://github.com/broadinstitute/singlecellportal/issues

Need Help?

Email us at scp-support@broadinstitute.zendesk.com

Happy Science!!!

The Single-Cell Portal Team

Owner

  • Name: Broad Institute
  • Login: broadinstitute
  • Kind: organization
  • Location: Cambridge, MA

Broad Institute of MIT and Harvard

GitHub Events

Total
  • Issues event: 2
  • Watch event: 1
  • Issue comment event: 2
Last Year
  • Issues event: 2
  • Watch event: 1
  • Issue comment event: 2

Committers

Last synced: about 3 years ago

All Time
  • Total Commits: 512
  • Total Committers: 12
  • Avg Commits per committer: 42.667
  • Development Distribution Score (DDS): 0.617
Top Committers
Name Email Commits
Eric Weitz e****z@b****g 196
jlchang j****g@b****g 91
TimothyTickle t****e@g****m 82
Yanay Rosen y****y@b****g 53
Eno Akpan e****i@b****g 39
bistline b****e@b****g 21
vkozareva v****a@g****m 12
Eno-Abasi Augustine-Akpan e****i@i****m 8
Eric Weitz e****z@g****m 7
Alan O'Callaghan a****n@o****m 1
arsenb a****b@b****g 1
Devon Bush d****h@b****g 1
Committer Domains (Top 20 + Academic)
broadinstitute.org: 7

Issues and Pull Requests

Last synced: 12 months ago

All Time
  • Total issues: 37
  • Total pull requests: 65
  • Average time to close issues: 4 months
  • Average time to close pull requests: 13 days
  • Total issue authors: 26
  • Total pull request authors: 11
  • Average comments per issue: 4.22
  • Average comments per pull request: 0.51
  • Merged pull requests: 60
  • Bot issues: 0
  • Bot pull requests: 1
Past Year
  • Issues: 1
  • Pull requests: 0
  • Average time to close issues: about 16 hours
  • Average time to close pull requests: N/A
  • Issue authors: 1
  • Pull request authors: 0
  • Average comments per issue: 1.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • DarioS (3)
  • kvshams (3)
  • Bohdan-Khomtchouk (3)
  • gaelcge (2)
  • yulongliu68 (2)
  • kvittingseerup (2)
  • slowkow (2)
  • Diana-star-code (2)
  • mshadbolt (1)
  • Sara-Jager (1)
  • mmadeira97 (1)
  • SimonWu34 (1)
  • vschulz (1)
  • hurleyLi (1)
  • knapii-developments (1)
Pull Request Authors
  • eweitz (26)
  • jlchang (20)
  • knapii-developments (5)
  • YanayRosen (4)
  • bistline (4)
  • vkozareva (2)
  • Alanocallaghan (1)
  • katrinleinweber (1)
  • TimothyTickle (1)
  • devonbush (1)
  • dependabot[bot] (1)
Top Labels
Issue Labels
Pull Request Labels
security-risk: low (12) dependencies (1)

Packages

  • Total packages: 1
  • Total downloads:
    • pypi 18 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 1
  • Total versions: 5
  • Total maintainers: 1
pypi.org: single-cell-portal

Convenience scripts for Single Cell Portal

  • Versions: 5
  • Dependent Packages: 0
  • Dependent Repositories: 1
  • Downloads: 18 Last month
Rankings
Forks count: 7.7%
Stargazers count: 10.0%
Dependent packages count: 10.1%
Dependent repos count: 21.6%
Average: 24.6%
Downloads: 73.6%
Maintainers (1)
single_cell_portal
Last synced: 9 months ago