├── .gitignore ├── LICENSE ├── Makefile ├── README.md ├── bower.json ├── demo ├── test-all.html ├── test-cna.html ├── test-color.html ├── test-dendrogram.html ├── test-dispatch.html ├── test-graph.html ├── test-heatmap.html ├── test-mutmtx.html ├── test-scatterplot.html ├── test-tooltip.html ├── test-transcript.html └── testData │ ├── entireJson.json │ ├── example-annotation.json │ ├── example-cna-browser.json │ ├── example-cna.json │ ├── example-dendrogram-N30.json │ ├── example-graph.json │ ├── example-heatmap.json │ ├── example-mutation-matrix.json │ ├── example-scatterplot.json │ ├── example-transcript.json │ ├── example2-mutation-matrix.json │ ├── example2-transcript.json │ ├── example3-transcript.json │ ├── exampleAnnotations.json │ ├── extractAnnotationfromwhole.py │ ├── extractCNAfromwhole.py │ ├── extractMutMtxfromwhole.py │ └── extractTranscriptfromwhole.py ├── gd3.js ├── package.json ├── src ├── cna │ ├── cna.js │ ├── cnaChart.js │ ├── cnaData.js │ ├── cnaStyle.js │ └── index.js ├── core │ ├── class.js │ ├── color.js │ ├── dataStructures.js │ ├── index.js │ └── util.js ├── dendrogram │ ├── dendrogram.js │ ├── dendrogramChart.js │ ├── dendrogramData.js │ ├── dendrogramStyle.js │ └── index.js ├── dispatch │ ├── dispatch.js │ └── index.js ├── end.js ├── gd3.js ├── graph │ ├── graph.js │ ├── graphChart.js │ ├── graphData.js │ ├── graphStyle.js │ └── index.js ├── heatmap │ ├── heatmap.js │ ├── heatmapChart.js │ ├── heatmapData.js │ ├── heatmapStyle.js │ └── index.js ├── mutmtx │ ├── index.js │ ├── mutmtx.js │ ├── mutmtxChart.js │ ├── mutmtxData.js │ └── mutmtxStyle.js ├── scatterplot │ ├── index.js │ ├── scatterplot.js │ ├── scatterplotChart.js │ ├── scatterplotData.js │ └── scatterplotStyle.js ├── start.js ├── tooltip │ ├── annotationView-old.js │ ├── index.js │ ├── tooltip-license.md │ ├── tooltip.js │ ├── tooltipElement.js │ ├── tooltipImage.js │ ├── tooltipLink.js │ ├── tooltipStyle.js │ ├── tooltipTable.js │ ├── tooltipText.js │ ├── tooltipView.js │ └── tooltipVote.js └── transcript │ ├── index.js │ ├── transcript.js │ ├── transcriptChart.js │ ├── transcriptData.js │ └── transcriptStyle.js └── test └── placeholder.md /.gitignore: -------------------------------------------------------------------------------- 1 | .DS_Store 2 | bower_components/ 3 | node_modules/ 4 | gd3.test.js 5 | -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/LICENSE -------------------------------------------------------------------------------- /Makefile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/Makefile -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/README.md -------------------------------------------------------------------------------- /bower.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/bower.json -------------------------------------------------------------------------------- /demo/test-all.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/test-all.html -------------------------------------------------------------------------------- /demo/test-cna.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/test-cna.html -------------------------------------------------------------------------------- /demo/test-color.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/test-color.html -------------------------------------------------------------------------------- /demo/test-dendrogram.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/test-dendrogram.html -------------------------------------------------------------------------------- /demo/test-dispatch.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/test-dispatch.html -------------------------------------------------------------------------------- /demo/test-graph.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/test-graph.html -------------------------------------------------------------------------------- /demo/test-heatmap.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/test-heatmap.html -------------------------------------------------------------------------------- /demo/test-mutmtx.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/test-mutmtx.html -------------------------------------------------------------------------------- /demo/test-scatterplot.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/test-scatterplot.html -------------------------------------------------------------------------------- /demo/test-tooltip.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/test-tooltip.html -------------------------------------------------------------------------------- /demo/test-transcript.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/test-transcript.html -------------------------------------------------------------------------------- /demo/testData/entireJson.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/entireJson.json -------------------------------------------------------------------------------- /demo/testData/example-annotation.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/example-annotation.json -------------------------------------------------------------------------------- /demo/testData/example-cna-browser.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/example-cna-browser.json -------------------------------------------------------------------------------- /demo/testData/example-cna.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/example-cna.json -------------------------------------------------------------------------------- /demo/testData/example-dendrogram-N30.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/example-dendrogram-N30.json -------------------------------------------------------------------------------- /demo/testData/example-graph.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/example-graph.json -------------------------------------------------------------------------------- /demo/testData/example-heatmap.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/example-heatmap.json -------------------------------------------------------------------------------- /demo/testData/example-mutation-matrix.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/example-mutation-matrix.json -------------------------------------------------------------------------------- /demo/testData/example-scatterplot.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/example-scatterplot.json -------------------------------------------------------------------------------- /demo/testData/example-transcript.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/example-transcript.json -------------------------------------------------------------------------------- /demo/testData/example2-mutation-matrix.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/example2-mutation-matrix.json -------------------------------------------------------------------------------- /demo/testData/example2-transcript.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/example2-transcript.json -------------------------------------------------------------------------------- /demo/testData/example3-transcript.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/example3-transcript.json -------------------------------------------------------------------------------- /demo/testData/exampleAnnotations.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/exampleAnnotations.json -------------------------------------------------------------------------------- /demo/testData/extractAnnotationfromwhole.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/extractAnnotationfromwhole.py -------------------------------------------------------------------------------- /demo/testData/extractCNAfromwhole.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/extractCNAfromwhole.py -------------------------------------------------------------------------------- /demo/testData/extractMutMtxfromwhole.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/extractMutMtxfromwhole.py -------------------------------------------------------------------------------- /demo/testData/extractTranscriptfromwhole.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/demo/testData/extractTranscriptfromwhole.py -------------------------------------------------------------------------------- /gd3.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/gd3.js -------------------------------------------------------------------------------- /package.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/package.json -------------------------------------------------------------------------------- /src/cna/cna.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/cna/cna.js -------------------------------------------------------------------------------- /src/cna/cnaChart.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/cna/cnaChart.js -------------------------------------------------------------------------------- /src/cna/cnaData.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/cna/cnaData.js -------------------------------------------------------------------------------- /src/cna/cnaStyle.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/cna/cnaStyle.js -------------------------------------------------------------------------------- /src/cna/index.js: -------------------------------------------------------------------------------- 1 | import "cna.js"; -------------------------------------------------------------------------------- /src/core/class.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/core/class.js -------------------------------------------------------------------------------- /src/core/color.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/core/color.js -------------------------------------------------------------------------------- /src/core/dataStructures.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/core/dataStructures.js -------------------------------------------------------------------------------- /src/core/index.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/core/index.js -------------------------------------------------------------------------------- /src/core/util.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/core/util.js -------------------------------------------------------------------------------- /src/dendrogram/dendrogram.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/dendrogram/dendrogram.js -------------------------------------------------------------------------------- /src/dendrogram/dendrogramChart.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/dendrogram/dendrogramChart.js -------------------------------------------------------------------------------- /src/dendrogram/dendrogramData.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/dendrogram/dendrogramData.js -------------------------------------------------------------------------------- /src/dendrogram/dendrogramStyle.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/dendrogram/dendrogramStyle.js -------------------------------------------------------------------------------- /src/dendrogram/index.js: -------------------------------------------------------------------------------- 1 | import "dendrogram.js" -------------------------------------------------------------------------------- /src/dispatch/dispatch.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/dispatch/dispatch.js -------------------------------------------------------------------------------- /src/dispatch/index.js: -------------------------------------------------------------------------------- 1 | import "dispatch"; -------------------------------------------------------------------------------- /src/end.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/end.js -------------------------------------------------------------------------------- /src/gd3.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/gd3.js -------------------------------------------------------------------------------- /src/graph/graph.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/graph/graph.js -------------------------------------------------------------------------------- /src/graph/graphChart.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/graph/graphChart.js -------------------------------------------------------------------------------- /src/graph/graphData.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/graph/graphData.js -------------------------------------------------------------------------------- /src/graph/graphStyle.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/graph/graphStyle.js -------------------------------------------------------------------------------- /src/graph/index.js: -------------------------------------------------------------------------------- 1 | import "graph.js"; -------------------------------------------------------------------------------- /src/heatmap/heatmap.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/heatmap/heatmap.js -------------------------------------------------------------------------------- /src/heatmap/heatmapChart.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/heatmap/heatmapChart.js -------------------------------------------------------------------------------- /src/heatmap/heatmapData.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/heatmap/heatmapData.js -------------------------------------------------------------------------------- /src/heatmap/heatmapStyle.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/heatmap/heatmapStyle.js -------------------------------------------------------------------------------- /src/heatmap/index.js: -------------------------------------------------------------------------------- 1 | import "heatmap.js"; -------------------------------------------------------------------------------- /src/mutmtx/index.js: -------------------------------------------------------------------------------- 1 | import "mutmtx"; -------------------------------------------------------------------------------- /src/mutmtx/mutmtx.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/mutmtx/mutmtx.js -------------------------------------------------------------------------------- /src/mutmtx/mutmtxChart.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/mutmtx/mutmtxChart.js -------------------------------------------------------------------------------- /src/mutmtx/mutmtxData.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/mutmtx/mutmtxData.js -------------------------------------------------------------------------------- /src/mutmtx/mutmtxStyle.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/mutmtx/mutmtxStyle.js -------------------------------------------------------------------------------- /src/scatterplot/index.js: -------------------------------------------------------------------------------- 1 | import "scatterplot" -------------------------------------------------------------------------------- /src/scatterplot/scatterplot.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/scatterplot/scatterplot.js -------------------------------------------------------------------------------- /src/scatterplot/scatterplotChart.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/scatterplot/scatterplotChart.js -------------------------------------------------------------------------------- /src/scatterplot/scatterplotData.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/scatterplot/scatterplotData.js -------------------------------------------------------------------------------- /src/scatterplot/scatterplotStyle.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/scatterplot/scatterplotStyle.js -------------------------------------------------------------------------------- /src/start.js: -------------------------------------------------------------------------------- 1 | !function() { 2 | var gd3 = {version: '0.2.1'}; -------------------------------------------------------------------------------- /src/tooltip/annotationView-old.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/tooltip/annotationView-old.js -------------------------------------------------------------------------------- /src/tooltip/index.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/tooltip/index.js -------------------------------------------------------------------------------- /src/tooltip/tooltip-license.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/tooltip/tooltip-license.md -------------------------------------------------------------------------------- /src/tooltip/tooltip.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/tooltip/tooltip.js -------------------------------------------------------------------------------- /src/tooltip/tooltipElement.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/tooltip/tooltipElement.js -------------------------------------------------------------------------------- /src/tooltip/tooltipImage.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/tooltip/tooltipImage.js -------------------------------------------------------------------------------- /src/tooltip/tooltipLink.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/tooltip/tooltipLink.js -------------------------------------------------------------------------------- /src/tooltip/tooltipStyle.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/tooltip/tooltipStyle.js -------------------------------------------------------------------------------- /src/tooltip/tooltipTable.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/tooltip/tooltipTable.js -------------------------------------------------------------------------------- /src/tooltip/tooltipText.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/tooltip/tooltipText.js -------------------------------------------------------------------------------- /src/tooltip/tooltipView.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/tooltip/tooltipView.js -------------------------------------------------------------------------------- /src/tooltip/tooltipVote.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/tooltip/tooltipVote.js -------------------------------------------------------------------------------- /src/transcript/index.js: -------------------------------------------------------------------------------- 1 | import "transcript"; -------------------------------------------------------------------------------- /src/transcript/transcript.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/transcript/transcript.js -------------------------------------------------------------------------------- /src/transcript/transcriptChart.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/transcript/transcriptChart.js -------------------------------------------------------------------------------- /src/transcript/transcriptData.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/transcript/transcriptData.js -------------------------------------------------------------------------------- /src/transcript/transcriptStyle.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/raphael-group/gd3/HEAD/src/transcript/transcriptStyle.js -------------------------------------------------------------------------------- /test/placeholder.md: -------------------------------------------------------------------------------- 1 | --------------------------------------------------------------------------------