gosling.js

Grammar of Scalable Linked Interactive Nucleotide Graphics

https://github.com/gosling-lang/gosling.js

Science Score: 77.0%

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

✓
CITATION.cff file
Found CITATION.cff file
✓
codemeta.json file
Found codemeta.json file
✓
.zenodo.json file
Found .zenodo.json file
✓
DOI references
Found 2 DOI reference(s) in README
✓
Academic publication links
Links to: ncbi.nlm.nih.gov, wiley.com
✓
Committers with academic emails
1 of 11 committers (9.1%) from academic institutions
○
Institutional organization owner
○
JOSS paper metadata
○
Scientific vocabulary similarity
Low similarity (13.3%) to scientific vocabulary

Keywords

dataviz genomics gosling grammar hidivelab higlass typescript visualization webgl

Keywords from Contributors

interaction imaging packaging network-simulation hacking embedded optim standardization projection generic

Last synced: 4 months ago · JSON representation ·

Repository

Grammar of Scalable Linked Interactive Nucleotide Graphics

Basic Info

Host: GitHub
Owner: gosling-lang
License: mit
Language: TypeScript
Default Branch: main
Homepage: https://gosling.js.org
Size: 105 MB

Statistics

Stars: 179
Watchers: 6
Forks: 30
Open Issues: 41
Releases: 102

Topics

dataviz genomics gosling grammar hidivelab higlass typescript visualization webgl

Created over 5 years ago · Last pushed 4 months ago

Metadata Files

Readme Changelog Contributing License Citation

Gosling.js

Gosling.js is a declarative grammar for interactive (epi)genomics visualization on the Web.

teaser

Why Gosling?

The Gosling's key features compared to existing visualization libraries and grammars are as follows:

Encoding/Data Scalability: Gosling scales from whole genomes to single nucleotides via semantic zooming that updates visual encodings dynamically and by using the rendering and data access capabilities of our HiGlass genomics visualization framework.
Expressiveness: Gosling is designed to be expressive enough to generate pretty much any visualization of genome-mapped data, which we accomplished by basing the grammar on our taxonomy of (epi)genomics data visualizations.
Interactivity: Gosling has intuitive and effective user interactions built in, including zooming and panning and brushing and linking. This enables flexible visualizations that cover a wide range of visual analysis scenarios, like overview + detail views with brushes or comparative views.

Learn More About Gosling

Contribute to Gosling.js

We welcome and greatly appreciate your contribution to this project! Please read CONTRIBUTING.md to find guidelines.

Contact

Open Github Issues to ask questions or request features.

Citation

L'Yi et al., 2021. “Gosling: A Grammar-based Toolkit for Scalable and Interactive Genomics Data Visualization.”

bib @article{lyi2021gosling, author = {L'Yi, Sehi and Wang, Qianwen and Lekschas, Fritz and Gehlenborg, Nils}, doi = {10.1109/TVCG.2021.3114876}, journal = {IEEE Transactions on Visualization and Computer Graphics}, month = {1}, number = {1}, pages = {140--150}, title = {{Gosling: A Grammar-based Toolkit forScalable and Interactive Genomics Data Visualization}}, year = {2022} }

License

This project is licensed under the terms of the MIT license.

Owner

Name: Gosling
Login: gosling-lang
Kind: organization
Location: United States of America

Website: https://gosling.js.org
Repositories: 23
Profile: https://github.com/gosling-lang

The data visualization grammar of scalable linked interactive nucleotide graphics. A project of the Gehlenborg Lab at @hms-dbmi.

Citation (CITATION.cff)

cff-version: 1.2.0
message: "If you use this software, please cite it as below."
title: "Gosling"
authors:
  - family-names: "L'Yi"
    given-names: "Sehi"
    orcid: "https://orcid.org/0000-0001-7720-2848"
    affiliation: "Harvard Medical School"
  - family-names: "Wang"
    given-names: "Qianwen"
    orcid: "https://orcid.org/0000-0003-1728-4102"
    affiliation: "Harvard Medical School"
  - family-names: "Lekschas"
    given-names: "Fritz"
    orcid: "https://orcid.org/0000-0001-8432-4835"
    affiliation: "Harvard University"
  - family-names: "Manz"
    given-names: "Trevor"
    orcid: "https://orcid.org/0000-0001-7694-5164"
    affiliation: "Harvard Medical School"
  - family-names: "Gehlenborg"
    given-names: "Nils"
    orcid: "https://orcid.org/0000-0003-0327-8297"
    affiliation: "Harvard Medical School"
url: "https://github.com/gosling-lang/gosling.js"
preferred-citation:
  type: article
  title: "Gosling: A Grammar-based Toolkit forScalable and Interactive Genomics Data Visualization"
  authors:
    - family-names: "L'Yi"
      given-names: "Sehi"
      orcid: "https://orcid.org/0000-0001-7720-2848"
      affiliation: "Harvard Medical School"
    - family-names: "Wang"
      given-names: "Qianwen"
      orcid: "https://orcid.org/0000-0003-1728-4102"
      affiliation: "Harvard Medical School"
    - family-names: "Lekschas"
      given-names: "Fritz"
      orcid: "https://orcid.org/0000-0001-8432-4835"
      affiliation: "Harvard University"
    - family-names: "Gehlenborg"
      given-names: "Nils"
      orcid: "https://orcid.org/0000-0003-0327-8297"
      affiliation: "Harvard Medical School"
  journal: "IEEE Transactions on Visualization and Computer Graphics"
  doi: 10.1109/TVCG.2021.3114876
  month: 1
  year: 2022
  issue: 1
  volumne: 28
  start: 140
  end: 150

GitHub Events

Total

Fork event: 4
Create event: 66
Commit comment event: 1
Release event: 6
Issues event: 205
Watch event: 11
Delete event: 83
Member event: 2
Issue comment event: 173
Push event: 188
Pull request review event: 54
Pull request review comment event: 45
Pull request event: 121

Last Year

Fork event: 4
Create event: 66
Commit comment event: 1
Release event: 6
Issues event: 205
Watch event: 11
Delete event: 83
Member event: 2
Issue comment event: 173
Push event: 188
Pull request review event: 54
Pull request review comment event: 45
Pull request event: 121

Committers

Last synced: 6 months ago

All Time

Total Commits: 839
Total Committers: 11
Avg Commits per committer: 76.273
Development Distribution Score (DDS): 0.174

Past Year

Commits: 21
Committers: 3
Avg Commits per committer: 7.0
Development Distribution Score (DDS): 0.238

Top Committers

Name	Email	Commits
Sehi L'Yi	s**i@h**u	693
Trevor Manz	t**z@g**m	56
etowahadams	e**s@g**m	43
Qianwen Wang	w**8@1**m	24
dependabot[bot]	4****]	11
Thomas C. Smits	9****s	3
Fritz Lekschas	9****s	3
ThHarbig	t**a@h**e	2
Sehi L'Yi	s**i@g**m	2
seanli3	3****3	1
David Kouřil	d**l@g**m	1

Committer Domains (Top 20 + Academic)

hotmail.de: 1 163.com: 1 hms.harvard.edu: 1

Issues and Pull Requests

Last synced: 4 months ago

All Time

Total issues: 285
Total pull requests: 284
Average time to close issues: over 2 years
Average time to close pull requests: 3 months
Total issue authors: 33
Total pull request authors: 8
Average comments per issue: 1.54
Average comments per pull request: 0.94
Merged pull requests: 182
Bot issues: 0
Bot pull requests: 29

Past Year

Issues: 24
Pull requests: 113
Average time to close issues: 10 days
Average time to close pull requests: 5 days
Issue authors: 10
Pull request authors: 4
Average comments per issue: 0.58
Average comments per pull request: 0.51
Merged pull requests: 76
Bot issues: 0
Bot pull requests: 14

View more stats

Top Authors

Issue Authors

sehilyi (157)
etowahadams (18)
zhangzhen (17)
ThHarbig (13)
manzt (11)
flekschas (11)
thomcsmits (6)
dvmoritzschoefl (5)
ngehlenborg (4)
puehringer (4)
keller-mark (3)
wangqianwen0418 (3)
vineetver (2)
andreaswallberg (2)
AlexAdrian-Hamazaki (2)

Pull Request Authors

sehilyi (156)
etowahadams (63)
dependabot[bot] (28)
manzt (25)
dvdkouril (15)
thomcsmits (8)
ThHarbig (2)
wangqianwen0418 (1)

Top Labels

Issue Labels

enhancement (153) bug🐛 (71) grammar (20) question (19) editor (15) good first issue (12) v2 (12) D? (12) P? (12) closing candidate (11) P1 (10) documentation (9) P5 (9) example (8) v1.0.0 (5) D1 (5) accessibility (5) maintenance (5) help wanted (4) D5 (3) refactor (3) higlass 🔍 (2)

Pull Request Labels

dependencies (28) javascript (14) v2 (9)

Packages

Total packages: 3
Total downloads:
- npm 355 last-month

Total dependent packages: 8
(may contain duplicates)
Total dependent repositories: 12
(may contain duplicates)
Total versions: 90
Total maintainers: 2

npmjs.org: gosling.js

[![npm version](https://img.shields.io/npm/v/gosling.js.svg)](https://www.npmjs.com/package/gosling.js) [![editor status](https://github.com/gosling-lang/gosling.js/actions/workflows/deploy-editor.yml/badge.svg)](https://github.com/gosling-lang/gosling.js

Homepage: https://gosling-lang.github.io/gosling.js/
License: MIT
Latest release: 1.0.5
published 6 months ago

Versions: 88
Dependent Packages: 6
Dependent Repositories: 12
Downloads: 355 Last month

Rankings

Dependent packages count: 3.2%

Dependent repos count: 3.4%

Average: 4.1%

Downloads: 4.1%

Stargazers count: 4.4%

Forks count: 5.4%

Maintainers (1)

sehilyi

Last synced: 4 months ago

npmjs.org: @ericastutz/gosling.js

[![npm version](https://img.shields.io/npm/v/gosling.js.svg?style=flat-square)](https://www.npmjs.com/package/gosling.js) [![build status](https://img.shields.io/travis/sehilyi/geminid/master.svg?style=flat-square)](https://travis-ci.com/gosling-lang/gosl

Homepage: https://gosling-lang.github.io/gosling.js/
License: MIT
Latest release: 0.9.19
published over 3 years ago

Versions: 1
Dependent Packages: 1
Dependent Repositories: 0
Downloads: 0 Last month

Rankings

Stargazers count: 5.9%

Forks count: 7.7%

Dependent packages count: 16.2%

Average: 21.8%

Dependent repos count: 25.3%

Downloads: 54.1%

Maintainers (1)

ericastutz

Last synced: 4 months ago

npmjs.org: @ericastutz/erica_gosling2.js

Homepage: https://gosling-lang.github.io/gosling.js/
License: MIT
Latest release: 0.9.19
published over 3 years ago

Versions: 1
Dependent Packages: 1
Dependent Repositories: 0
Downloads: 0 Last month

Rankings

Stargazers count: 5.9%

Forks count: 7.7%

Dependent packages count: 16.2%

Average: 22.3%

Dependent repos count: 25.3%

Downloads: 56.5%

Maintainers (1)

ericastutz

Last synced: 4 months ago

Dependencies

package.json npm

@commitlint/cli ^11.0.0 development
@commitlint/config-conventional ^11.0.0 development
@testing-library/react ^10.4.8 development
@testing-library/user-event ^12.1.1 development
@types/d3-drag 1 development
@types/d3-request ^1.0.6 development
@types/d3-selection 1 development
@types/lodash-es ^4.17.5 development
@types/pubsub-js ^1.8.2 development
@types/react ^16.9.46 development
@types/react-dom ^16.9.8 development
@types/react-resize-detector ^4.2.0 development
@types/react-router-dom ^5.1.6 development
@typescript-eslint/eslint-plugin ^5.30.5 development
@typescript-eslint/parser ^5.30.5 development
@vitejs/plugin-react-refresh ^1.3.6 development
ajv ^6.12.2 development
c8 ^7.11.2 development
conventional-changelog-cli ^2.1.1 development
cross-fetch ^3.1.5 development
d3-drag ^1 development
d3-selection ^1 development
documentation ^13.0.2 development
esbuild ^0.12.25 development
eslint ^8.19.0 development
eslint-config-prettier ^8.5.0 development
eslint-plugin-prettier ^4.2.1 development
eslint-plugin-react ^7.30.1 development
fetch-jsonp ^1.1.3 development
gh-pages ^3.1.0 development
git-branch-is ^4.0.0 development
husky ^4.2.5 development
jest-canvas-mock ^2.3.0 development
jsdom ^19.0.0 development
jsoncrush ^1.1.6 development
npm-run-all ^4.1.5 development
pixi.js ^6.3.0 development
prettier ^2.0.5 development
react 16.13.1 development
react-dom 16.13.1 development
react-markdown ^5.0.3 development
react-monaco-editor ^0.45.0 development
react-resize-detector ^4.2.3 development
react-router-dom ^5.2.0 development
react-split-pane ^0.1.91 development
remark-gfm ^1.0.0 development
strip-json-comments ^3.1.1 development
ts-json-schema-generator ^1.0.0 development
typescript ^4.7.4 development
vite ^2.9.5 development
vitest ^0.10.0 development
@gmod/bam ^1.1.8
@gmod/bbi ^1.0.30
@gmod/tabix ^1.5.3
@gmod/vcf ^5.0.6
@types/bezier-js ^4.1.0
@types/d3 ^7.0.0
@types/lodash ^4.14.151
@types/node ^18.6.2
@types/rbush ^3.0.0
@types/uuid ^8.3.1
bezier-js 4.0.3
buffer ^6.0.3
css-element-queries ^1.2.3
d3-array ^2.5.1
d3-color ^2.0.0
d3-dsv ^2.0.0
d3-scale ^3.2.1
d3-scale-chromatic ^2.0.0
d3-shape ^2.0.0
fflate ^0.7.1
generic-filehandle 2.2.1
gosling-theme ^0.0.10
higlass ^1.11.8
higlass-register ^0.3.0
higlass-text ^0.1.1
json-stringify-pretty-compact ^2.0.0
jspdf ^2.3.1
lodash-es ^4.17.21
mixwith ^0.1.1
pubsub-js ^1.9.3
quick-lru ^6.1.1
rbush ^3.0.1
react-grid-layout ^1.2.5
threads ^1.6.4
uuid ^8.3.2

yarn.lock npm

1299 dependencies

.github/workflows/release.yml actions

actions/checkout v2 composite
actions/create-release v1 composite

.github/workflows/ci.yml actions

actions/checkout v3 composite
actions/setup-node v3 composite
codecov/codecov-action v1 composite

.github/workflows/deploy-editor.yml actions

actions/checkout v3 composite
actions/setup-node v3 composite

.github/workflows/semantic-pull-request.yml actions

amannn/action-semantic-pull-request v5 composite

notebooks/environment.yml pypi

bumpversion *
click >=7
clodius *
cooler >=0.8.5
negspy *
nose *
pybbi >=0.2.2
pytest *
pytest-cov *
slugid *
sortedcontainers *

gosling.js

Science Score: 77.0%

Keywords

Keywords from Contributors

Repository

Basic Info

Statistics

Topics

Metadata Files

README.md

Gosling.js

Why Gosling?

Learn More About Gosling

Contribute to Gosling.js

Contact

Citation

License

Owner

Citation (CITATION.cff)

GitHub Events

Total

Last Year

Committers

All Time

Past Year

Top Committers

Committer Domains (Top 20 + Academic)

Issues and Pull Requests

All Time

Past Year

Top Authors

Issue Authors

Pull Request Authors

Top Labels

Issue Labels

Pull Request Labels

Packages

npmjs.org: gosling.js

Rankings

Maintainers (1)

npmjs.org: @ericastutz/gosling.js

Rankings

Maintainers (1)

npmjs.org: @ericastutz/erica_gosling2.js

Rankings

Maintainers (1)

Dependencies