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Gathering detailed insights and metrics for cytoscape-cose-bilkent

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Gathering detailed insights and metrics for cytoscape-cose-bilkent

cytoscape-cose-bilkent

The CoSE layout for Cytoscape.js by Bilkent with enhanced compound node placement.

4.1.0

126

MIT

HTML

19.40 kB

36,727,901 2.4

Installations

npm install cytoscape-cose-bilkent

Pull Requests

Open

11

Total

57

Closed

20

Merged

26

Issues

Open

18

Total

73

Closed

55

Releases

4.1.0

v4.1.0

Published on 09 Sept 2019

4.0.0

v4.0.0

Published on 08 Dec 2017

3.0.4

Published on 29 Nov 2017

3.0.3

Published on 29 Nov 2017

3.0.2

Published on 16 Nov 2017

3.0.1

Published on 09 Nov 2017

View all 13 releases

Developer

cytoscape

Developer Guide

BETA

Module System

CommonJS

Min. Node Version

Typescript Support

No

Node Version

11.3.0

NPM Version

6.4.1 Statistics

126 Stars

259 Commits

45 Forks

25 Watching

14 Branches

32 Contributors

Updated on 02 Nov 2024

Bundle Size

75.18 kB

Minified

19.40 kB

Minified + Gzipped

Bundlephobia

Languages

HTML (57.97%)

JavaScript (42.03%)

Total Downloads

Cumulative downloads

Total Downloads

36,727,901

Last day

2.4%

156,233

Compared to previous day

Last week

2.1%

762,395

Compared to previous week

Last month

14.9%

3,194,771

Compared to previous month

Last year

215.9%

27,128,909

Compared to previous year

Daily Downloads

Weekly Downloads

Monthly Downloads

Yearly Downloads

Versions

cytoscape-cose-bilkent

Description

The CoSE (pron. "cosay", Compound Spring Embedder) layout for Cytoscape.js developed by i-Vis Lab in Bilkent University is a spring embedder layout with support for compound graphs (nested structures) and varying (non-uniform) node dimensions. A faster version of this layout style called fCoSE, also supporting user-defined placement constraints can be found here. (demo, compound demo)

Please cite the following when using this layout:

U. Dogrusoz, E. Giral, A. Cetintas, A. Civril, and E. Demir, "A Layout Algorithm For Undirected Compound Graphs", Information Sciences, 179, pp. 980-994, 2009.

Dependencies

Cytoscape.js ^3.2.0
cose-base ^1.0.0

Usage instructions

Download the library:

via npm: npm install cytoscape-cose-bilkent,
via bower: bower install cytoscape-cose-bilkent, or
via direct download in the repository (probably from a tag).

Import the library as appropriate for your project:

ES import:

1import cytoscape from 'cytoscape';
2import coseBilkent from 'cytoscape-cose-bilkent';
3
4cytoscape.use( coseBilkent );

CommonJS require:

1let cytoscape = require('cytoscape');
2let coseBilkent = require('cytoscape-cose-bilkent');
3
4cytoscape.use( coseBilkent ); // register extension

AMD:

1require(['cytoscape', 'cytoscape-cose-bilkent'], function( cytoscape, coseBilkent ){
2  coseBilkent( cytoscape ); // register extension
3});

Plain HTML/JS has the extension registered for you automatically, because no require() is needed. Just add the following files:

<script src="https://unpkg.com/layout-base/layout-base.js"></script>
<script src="https://unpkg.com/cose-base/cose-base.js"></script>
<script src="cytoscape-cose-bilkent.js"></script>

API

When calling the layout, e.g. cy.layout({ name: 'cose-bilkent', ... }), the following options are supported:

1var defaultOptions = {
2  // Called on `layoutready`
3  ready: function () {
4  },
5  // Called on `layoutstop`
6  stop: function () {
7  },
8  // 'draft', 'default' or 'proof" 
9  // - 'draft' fast cooling rate 
10  // - 'default' moderate cooling rate 
11  // - "proof" slow cooling rate
12  quality: 'default',
13  // Whether to include labels in node dimensions. Useful for avoiding label overlap
14  nodeDimensionsIncludeLabels: false,
15  // number of ticks per frame; higher is faster but more jerky
16  refresh: 30,
17  // Whether to fit the network view after when done
18  fit: true,
19  // Padding on fit
20  padding: 10,
21  // Whether to enable incremental mode
22  randomize: true,
23  // Node repulsion (non overlapping) multiplier
24  nodeRepulsion: 4500,
25  // Ideal (intra-graph) edge length
26  idealEdgeLength: 50,
27  // Divisor to compute edge forces
28  edgeElasticity: 0.45,
29  // Nesting factor (multiplier) to compute ideal edge length for inter-graph edges
30  nestingFactor: 0.1,
31  // Gravity force (constant)
32  gravity: 0.25,
33  // Maximum number of iterations to perform
34  numIter: 2500,
35  // Whether to tile disconnected nodes
36  tile: true,
37  // Type of layout animation. The option set is {'during', 'end', false}
38  animate: 'end',
39  // Duration for animate:end
40  animationDuration: 500,
41  // Amount of vertical space to put between degree zero nodes during tiling (can also be a function)
42  tilingPaddingVertical: 10,
43  // Amount of horizontal space to put between degree zero nodes during tiling (can also be a function)
44  tilingPaddingHorizontal: 10,
45  // Gravity range (constant) for compounds
46  gravityRangeCompound: 1.5,
47  // Gravity force (constant) for compounds
48  gravityCompound: 1.0,
49  // Gravity range (constant)
50  gravityRange: 3.8,
51  // Initial cooling factor for incremental layout
52  initialEnergyOnIncremental: 0.5
53};

Note that this extension supports only relatively modern browsers. Browsers like IE require significant shimming, for example with core-js.

Note that while running Cytoscape.js in headless mode, stylingEnabled option of Cytoscape.js should be set as true because this extension considers node dimensions and some other styling properties.

Build targets

npm run test : Run Mocha tests in ./test
npm run build : Build ./src/** into cytoscape-cose-bilkent.js
npm run watch : Automatically build on changes with live reloading (N.b. you must already have an HTTP server running)
npm run dev : Automatically build on changes with live reloading with webpack dev server
npm run lint : Run eslint on the source

N.b. all builds use babel, so modern ES features can be used in the src.

Publishing instructions

This project is set up to automatically be published to npm and bower. To publish:

Build the extension : npm run build:release
Commit the build : git commit -am "Build for release"
Bump the version number and tag: npm version major|minor|patch
Push to origin: git push && git push --tags
Publish to npm: npm publish .
If publishing to bower for the first time, you'll need to run bower register cytoscape-cose-bilkent https://github.com/cytoscape/cytoscape.js-cose-bilkent.git
Make a new release for Zenodo.

No vulnerabilities found.

10

Binary-Artifacts

Determines if the project has generated executable (binary) artifacts in the source repository.

10

License

Determines if the project has defined a license.

5

Code-Review

Determines if the project requires human code review before pull requests (aka merge requests) are merged.

0

Maintained

Determines if the project is "actively maintained".

0

CII-Best-Practices

Determines if the project has an OpenSSF (formerly CII) Best Practices Badge.

0

Security-Policy

Determines if the project has published a security policy.

0

Fuzzing

Determines if the project uses fuzzing.

0

Branch-Protection

Determines if the default and release branches are protected with GitHub's branch protection settings.

0

SAST

Determines if the project uses static code analysis.

0

Vulnerabilities

Determines if the project has open, known unfixed vulnerabilities.

Reason

110 existing vulnerabilities detected

Details

Warn: Project is vulnerable to: GHSA-6chw-6frg-f759
Warn: Project is vulnerable to: GHSA-v88g-cgmw-v5xw
Warn: Project is vulnerable to: GHSA-whgm-jr23-g3j9
Warn: Project is vulnerable to: GHSA-93q8-gq69-wqmw
Warn: Project is vulnerable to: GHSA-66rh-8fw6-59q6
Warn: Project is vulnerable to: GHSA-fwr7-v2mv-hh25
Warn: Project is vulnerable to: GHSA-67hx-6x53-jw92
Warn: Project is vulnerable to: GHSA-qwcr-r2fm-qrc7
Warn: Project is vulnerable to: GHSA-cwfw-4gq5-mrqx
Warn: Project is vulnerable to: GHSA-g95f-p29q-9xw4
Warn: Project is vulnerable to: GHSA-grv7-fg5c-xmjg
Warn: Project is vulnerable to: GHSA-x9w5-v3q2-3rhw
Warn: Project is vulnerable to: GHSA-c6rq-rjc2-86v2
Warn: Project is vulnerable to: GHSA-pxg6-pf52-xh8x
Warn: Project is vulnerable to: GHSA-3xgq-45jj-v275
Warn: Project is vulnerable to: GHSA-9vvw-cc9w-f27h
Warn: Project is vulnerable to: GHSA-gxpj-cx7g-858c
Warn: Project is vulnerable to: GHSA-w573-4hg7-7wgq
Warn: Project is vulnerable to: GHSA-pjxw-22xf-6pwc
Warn: Project is vulnerable to: GHSA-h6ch-v84p-w6p9
Warn: Project is vulnerable to: GHSA-3wcq-x3mq-6r9p
Warn: Project is vulnerable to: GHSA-vh7m-p724-62c2
Warn: Project is vulnerable to: GHSA-r9p9-mrjm-926w
Warn: Project is vulnerable to: GHSA-434g-2637-qmqr
Warn: Project is vulnerable to: GHSA-49q7-c7j4-3p7m
Warn: Project is vulnerable to: GHSA-977x-g7h5-7qgw
Warn: Project is vulnerable to: GHSA-f7q4-pwc6-w24p
Warn: Project is vulnerable to: GHSA-fc9h-whq2-v747
Warn: Project is vulnerable to: GHSA-4gmj-3p3h-gm8h
Warn: Project is vulnerable to: GHSA-mh6f-8j2x-4483
Warn: Project is vulnerable to: GHSA-6h5x-7c5m-7cr7
Warn: Project is vulnerable to: GHSA-rv95-896h-c2vc
Warn: Project is vulnerable to: GHSA-qw6h-vgh9-j6wx
Warn: Project is vulnerable to: GHSA-9x64-5r7x-2q53
Warn: Project is vulnerable to: GHSA-74fj-2j2h-c42q
Warn: Project is vulnerable to: GHSA-pw2r-vq6v-hr8c
Warn: Project is vulnerable to: GHSA-jchw-25xp-jwwc
Warn: Project is vulnerable to: GHSA-cxjh-pqwp-8mfp
Warn: Project is vulnerable to: GHSA-8r6j-v8pm-fqw3
Warn: Project is vulnerable to: MAL-2023-462
Warn: Project is vulnerable to: GHSA-4q6p-r6v2-jvc5
Warn: Project is vulnerable to: GHSA-8mmm-9v2q-x3f9
Warn: Project is vulnerable to: GHSA-qh2h-chj9-jffq
Warn: Project is vulnerable to: GHSA-43f8-2h32-f4cj
Warn: Project is vulnerable to: GHSA-6x33-pw7p-hmpq
Warn: Project is vulnerable to: GHSA-c7qv-q95q-8v27
Warn: Project is vulnerable to: GHSA-qqgx-2p2h-9c37
Warn: Project is vulnerable to: GHSA-78xj-cgh5-2h22
Warn: Project is vulnerable to: GHSA-2p57-rm9w-gvfp
Warn: Project is vulnerable to: GHSA-2pr6-76vf-7546
Warn: Project is vulnerable to: GHSA-8j8c-7jfh-h6hx
Warn: Project is vulnerable to: GHSA-9c47-m6qq-7p4h
Warn: Project is vulnerable to: GHSA-282f-qqgm-c34q
Warn: Project is vulnerable to: GHSA-6c8f-qphg-qjgp
Warn: Project is vulnerable to: GHSA-76p3-8jx3-jpfq
Warn: Project is vulnerable to: GHSA-3rfm-jhwj-7488
Warn: Project is vulnerable to: GHSA-hhq3-ff78-jv3g
Warn: Project is vulnerable to: GHSA-jf85-cpcp-j695
Warn: Project is vulnerable to: GHSA-p6mc-m468-83gw
Warn: Project is vulnerable to: GHSA-29mw-wpgm-hmr9
Warn: Project is vulnerable to: GHSA-35jh-r3h4-6jhm
Warn: Project is vulnerable to: GHSA-r6rj-9ch6-g264
Warn: Project is vulnerable to: GHSA-952p-6rrq-rcjv
Warn: Project is vulnerable to: GHSA-f8q6-p94x-37v3
Warn: Project is vulnerable to: GHSA-vh95-rmgr-6w4m / GHSA-xvch-5gv4-984h
Warn: Project is vulnerable to: GHSA-fhjf-83wg-r2j9
Warn: Project is vulnerable to: GHSA-w9mr-4mfr-499f
Warn: Project is vulnerable to: GHSA-92xj-mqp7-vmcj
Warn: Project is vulnerable to: GHSA-wxgw-qj99-44c2
Warn: Project is vulnerable to: GHSA-5rrq-pxf6-6jx5
Warn: Project is vulnerable to: GHSA-8fr3-hfg3-gpgp
Warn: Project is vulnerable to: GHSA-gf8q-jrpm-jvxq
Warn: Project is vulnerable to: GHSA-2r2c-g63r-vccr
Warn: Project is vulnerable to: GHSA-cfm4-qjh2-4765
Warn: Project is vulnerable to: GHSA-x4jg-mjrx-434g
Warn: Project is vulnerable to: GHSA-hj48-42vr-x3v9
Warn: Project is vulnerable to: GHSA-9wv6-86v2-598j
Warn: Project is vulnerable to: GHSA-g6ww-v8xp-vmwg
Warn: Project is vulnerable to: GHSA-hrpp-h998-j3pp
Warn: Project is vulnerable to: GHSA-c2qf-rxjj-qqgw
Warn: Project is vulnerable to: GHSA-m6fv-jmcg-4jfg
Warn: Project is vulnerable to: GHSA-cm22-4g7w-348p
Warn: Project is vulnerable to: GHSA-jv35-xqg7-f92r
Warn: Project is vulnerable to: GHSA-4g88-fppr-53pp
Warn: Project is vulnerable to: GHSA-4jqc-8m5r-9rpr
Warn: Project is vulnerable to: GHSA-g4rg-993r-mgx7
Warn: Project is vulnerable to: GHSA-4rq4-32rv-6wp6
Warn: Project is vulnerable to: GHSA-64g7-mvw6-v9qj
Warn: Project is vulnerable to: GHSA-c9g6-9335-x697
Warn: Project is vulnerable to: GHSA-j44m-qm6p-hp7m
Warn: Project is vulnerable to: GHSA-3jfq-g458-7qm9
Warn: Project is vulnerable to: GHSA-r628-mhmh-qjhw
Warn: Project is vulnerable to: GHSA-9r2w-394v-53qc
Warn: Project is vulnerable to: GHSA-5955-9wpr-37jh
Warn: Project is vulnerable to: GHSA-qq89-hq3f-393p
Warn: Project is vulnerable to: GHSA-f5x3-32g6-xq36
Warn: Project is vulnerable to: GHSA-7p7h-4mm5-852v
Warn: Project is vulnerable to: GHSA-46c4-8wrp-j99v
Warn: Project is vulnerable to: GHSA-9m6j-fcg5-2442
Warn: Project is vulnerable to: GHSA-hh27-ffr2-f2jc
Warn: Project is vulnerable to: GHSA-rqff-837h-mm52
Warn: Project is vulnerable to: GHSA-8v38-pw62-9cw2
Warn: Project is vulnerable to: GHSA-hgjh-723h-mx2j
Warn: Project is vulnerable to: GHSA-jf5r-8hm2-f872
Warn: Project is vulnerable to: GHSA-wr3j-pwj9-hqq6
Warn: Project is vulnerable to: GHSA-cf66-xwfp-gvc4
Warn: Project is vulnerable to: GHSA-g78m-2chm-r7qv
Warn: Project is vulnerable to: GHSA-j8xg-fqg3-53r7
Warn: Project is vulnerable to: GHSA-c4w7-xm78-47vh
Warn: Project is vulnerable to: GHSA-p9pc-299p-vxgp

Score

2.4

/10

Last Scanned on 2024-11-25

The Open Source Security Foundation is a cross-industry collaboration to improve the security of open source software (OSS). The Scorecard provides security health metrics for open source projects.

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Other packages similar to cytoscape-cose-bilkent

Other packages similar to cytoscape-cose-bilkent

cytoscape-cose-bilkent

Installations

Pull Requests

11

57

20

26

Issues

18

73

55

Releases

Developer

cytoscape

Developer Guide

CommonJS

No

11.3.0

6.4.1

Statistics

Bundle Size

75.18 kB

19.40 kB

Languages

Total Downloads

36,727,901

Daily Downloads

Weekly Downloads

Monthly Downloads

Yearly Downloads

Dependencies

Peer Dependencies

Dev Dependencies

cytoscape-cose-bilkent

Description

Dependencies

Usage instructions

API

Build targets

Publishing instructions

10

10

5

0

0

0

0

0

0

0

2.4

/10