├── .gitattributes ├── .gitignore ├── CODE_OF_CONDUCT.md ├── LICENSE ├── MANIFEST.in ├── README.rst ├── cellbrowserData ├── geneAnnot │ ├── Census_allWed Dec 6 18_35_54 2017.tsv │ ├── HPRD_molecular_class_081914.txt │ ├── README.txt │ ├── SFARI-Gene_genes_export06-12-2017.csv │ ├── brainspanMouse_9Dec17.txt │ ├── brainspan_genes.csv │ ├── devMouseBrainIds.txt │ ├── eurexpress_7Dec17.txt │ ├── gwascatalog_140201.tar.gz │ ├── hgnc_complete_set_05Dec17.txt │ ├── hpo_frequent_7Dec17.txt │ ├── log.txt │ ├── mgi_HGNC_homologene_8Dec17.txt │ └── mim2gene.txt ├── genes │ ├── gencode-human.symbols.tsv.gz │ ├── gencode-mouse.symbols.tsv.gz │ └── log.txt └── genomes │ ├── barChartBed.as │ ├── hg19.sizes │ ├── hg38.sizes │ ├── log.txt │ └── mm10.sizes ├── contributing.md ├── docs ├── Makefile ├── advanced.rst ├── basic_usage.rst ├── bulk.rst ├── cellBrowserLogo.png ├── cellBrowserLogoBallOnly.png ├── cellbrowser_conf.rst ├── cellranger.rst ├── collections.rst ├── combine.rst ├── conf.py ├── dataDesc.rst ├── howto.rst ├── images.rst ├── images │ ├── cellbrowser-BasicUiFeatures.converted.jpg │ ├── cellbrowser-DatasetOverview.converted.jpg │ ├── cellbrowser-GeneColoring.converted.jpg │ ├── cellbrowser-Markers.converted.jpg │ ├── cellbrowser-SplitHeat.converted.jpg │ └── favicon │ │ ├── android-chrome-192x192.png │ │ ├── android-chrome-512x512.png │ │ ├── apple-touch-icon.png │ │ ├── cellBrowserLogoRaw.png │ │ ├── favicon-16x16.png │ │ ├── favicon-32x32.png │ │ └── favicon.ico ├── index.rst ├── installation.rst ├── interface.rst ├── internet.rst ├── load.rst ├── markers.rst ├── quick_start.rst ├── release_notes.rst ├── scanpy.rst ├── seurat.rst ├── submission.rst ├── tabsep.rst └── tutorial.rst ├── makefile ├── pypi ├── MANIFEST.in └── README.md ├── sampleData ├── mini │ ├── README.md │ ├── acronyms.tsv │ ├── cellbrowser.conf │ ├── downloads.html │ ├── exprMatrix.tsv.gz │ ├── gene_shortlist.txt │ ├── markers.tsv │ ├── meta.tsv │ ├── methods.html │ ├── minimal.conf │ ├── quickGenes.csv │ ├── summary.html │ └── tsne.coords.tsv ├── pbmc_small │ ├── anndata.h5ad │ ├── exprMatrix.tsv.gz │ ├── runAll.sh │ ├── scanpy.conf │ ├── seurat.conf │ └── seurat2.rds └── quakeBrainGeo1 │ ├── README.md │ ├── exprMatrix.tsv.gz │ ├── fullMeta.tags │ ├── fullMeta.tsv │ ├── markerSymbols.txt │ └── meta.tsv ├── setup.cfg ├── setup.py ├── src ├── cbBuild ├── cbGenes ├── cbGet ├── cbHub ├── cbImportCellranger ├── cbImportScanpy ├── cbImportSeurat ├── cbMarkerAnnotate ├── cbPyLib │ ├── RangeHTTPServer │ │ ├── LICENSE │ │ ├── README │ │ ├── __init__.py │ │ └── __main__.py │ ├── cellbrowser │ │ ├── R │ │ │ └── cellbrowser.R │ │ ├── __init__.py │ │ ├── _version.py │ │ ├── cbWeb │ │ │ ├── css │ │ │ │ ├── MaterialIcons-Regular.eot │ │ │ │ ├── MaterialIcons-Regular.ttf │ │ │ │ ├── MaterialIcons-Regular.woff │ │ │ │ ├── MaterialIcons-Regular.woff2 │ │ │ │ └── cellBrowser.css │ │ │ ├── ext │ │ │ │ ├── Chart.bundle.min.js │ │ │ │ ├── FastBitSet.js │ │ │ │ ├── FileSaver.1.1.20151003.min.js │ │ │ │ ├── OverlayScrollbars.min.css │ │ │ │ ├── bootstrap-dropmenu.min.css │ │ │ │ ├── bootstrap-submenu.js │ │ │ │ ├── bootstrap-submenu.min.css │ │ │ │ ├── bootstrap.3.3.7.min.css │ │ │ │ ├── bootstrap.min.css │ │ │ │ ├── bootstrap.min.js │ │ │ │ ├── chartjs-chart-box-and-violin-plot.js │ │ │ │ ├── chosen-sprite.png │ │ │ │ ├── chosen-sprite@2x.png │ │ │ │ ├── chosen.1.8.2.min.css │ │ │ │ ├── chosen.jquery.min.js │ │ │ │ ├── drawImage-clipper.js │ │ │ │ ├── font-awesome.css │ │ │ │ ├── googleMaterialIcons.css │ │ │ │ ├── hamster.js │ │ │ │ ├── images │ │ │ │ │ ├── ui-bg_flat_0_aaaaaa_40x100.png │ │ │ │ │ ├── ui-icons_444444_256x240.png │ │ │ │ │ ├── ui-icons_555555_256x240.png │ │ │ │ │ ├── ui-icons_777620_256x240.png │ │ │ │ │ ├── ui-icons_777777_256x240.png │ │ │ │ │ ├── ui-icons_cc0000_256x240.png │ │ │ │ │ └── ui-icons_ffffff_256x240.png │ │ │ │ ├── intro.min.js │ │ │ │ ├── introjs.2.4.0.min.css │ │ │ │ ├── jquery-ui-1.12.1.css │ │ │ │ ├── jquery-ui.min.js │ │ │ │ ├── jquery.3.1.1.min.js │ │ │ │ ├── jquery.contextMenu.css │ │ │ │ ├── jquery.contextMenu.js │ │ │ │ ├── jquery.event.drag-2.3.0.js │ │ │ │ ├── jquery.overlayScrollbars.min.js │ │ │ │ ├── jquery.sparkline.min.js │ │ │ │ ├── jquery.tipsy.1.0.3.min.css │ │ │ │ ├── jquery.tipsy.min.js │ │ │ │ ├── jquery.ui.position.min.js │ │ │ │ ├── jsurl2.js │ │ │ │ ├── lz-string.js │ │ │ │ ├── materialIcons.woff │ │ │ │ ├── minified.js │ │ │ │ ├── mousetrap.min.js │ │ │ │ ├── normalizeWheel.js │ │ │ │ ├── pako_inflate.min.js │ │ │ │ ├── palette.js │ │ │ │ ├── papaparse.min.js │ │ │ │ ├── reorder.v1.js │ │ │ │ ├── scaleColorPerceptual.js │ │ │ │ ├── science.v1.js │ │ │ │ ├── select2.4.0.4.min.css │ │ │ │ ├── select2.min.js │ │ │ │ ├── selectize.bootstrap3.css │ │ │ │ ├── selectize.js │ │ │ │ ├── slick.cellrangedecorator.js │ │ │ │ ├── slick.cellrangeselector.js │ │ │ │ ├── slick.cellselectionmodel.js │ │ │ │ ├── slick.core.js │ │ │ │ ├── slick.editors.js │ │ │ │ ├── slick.examples.css │ │ │ │ ├── slick.formatters.js │ │ │ │ ├── slick.grid.css │ │ │ │ ├── slick.grid.js │ │ │ │ ├── spectrum-1.8.0.css │ │ │ │ ├── spectrum.min.js │ │ │ │ ├── split.js │ │ │ │ ├── tablesort.js │ │ │ │ ├── tablesort.number.min.js │ │ │ │ ├── temp │ │ │ │ │ └── node_modules │ │ │ │ │ │ └── scale-color-perceptual │ │ │ │ │ │ ├── .npmignore │ │ │ │ │ │ ├── LICENSE │ │ │ │ │ │ ├── Makefile │ │ │ │ │ │ ├── README.md │ │ │ │ │ │ ├── browser.js │ │ │ │ │ │ ├── build.js │ │ │ │ │ │ ├── example │ │ │ │ │ │ ├── d3-random-matrix.js │ │ │ │ │ │ ├── example.png │ │ │ │ │ │ ├── gradients.js │ │ │ │ │ │ └── package.json │ │ │ │ │ │ ├── hex │ │ │ │ │ │ ├── inferno.json │ │ │ │ │ │ ├── magma.json │ │ │ │ │ │ ├── plasma.json │ │ │ │ │ │ └── viridis.json │ │ │ │ │ │ ├── inferno.js │ │ │ │ │ │ ├── magma.js │ │ │ │ │ │ ├── package.json │ │ │ │ │ │ ├── plasma.js │ │ │ │ │ │ ├── rgb │ │ │ │ │ │ ├── inferno.json │ │ │ │ │ │ ├── magma.json │ │ │ │ │ │ ├── plasma.json │ │ │ │ │ │ └── viridis.json │ │ │ │ │ │ ├── utils │ │ │ │ │ │ ├── hex2rgb.js │ │ │ │ │ │ ├── interpolate.js │ │ │ │ │ │ └── rgb2hex.js │ │ │ │ │ │ └── viridis.js │ │ │ │ └── tiny-queue.js │ │ │ ├── genes │ │ │ │ ├── files.json │ │ │ │ ├── hg19.gc34.tsv │ │ │ │ ├── hg19.json.gz │ │ │ │ ├── hg38.gc34.tsv │ │ │ │ ├── hg38.json.gz │ │ │ │ ├── log.txt │ │ │ │ ├── makeGenes.py │ │ │ │ ├── mm10.json.gz │ │ │ │ └── mm10.vm25.tsv │ │ │ ├── img │ │ │ │ ├── README.md │ │ │ │ ├── center.png │ │ │ │ ├── gimpFlat │ │ │ │ │ ├── README.txt │ │ │ │ │ ├── gtk-justify-left.png │ │ │ │ │ ├── gtk-save.png │ │ │ │ │ ├── log.txt │ │ │ │ │ ├── stock-center-16.png │ │ │ │ │ ├── stock-center-24.png │ │ │ │ │ ├── stock-controller-16.png │ │ │ │ │ ├── stock-controller-24.png │ │ │ │ │ ├── stock-edit-16.png │ │ │ │ │ ├── stock-gravity-west-24.png │ │ │ │ │ ├── stock-info-16.png │ │ │ │ │ ├── stock-info-24.png │ │ │ │ │ ├── stock-merge-down-16.png │ │ │ │ │ ├── stock-scale-16.png │ │ │ │ │ ├── stock-tool-free-select-16.png │ │ │ │ │ ├── stock-tool-free-select-22.png │ │ │ │ │ ├── stock-tool-move-16.png │ │ │ │ │ ├── stock-tool-move-22.png │ │ │ │ │ ├── stock-tool-rect-select-16.png │ │ │ │ │ ├── stock-tool-rect-select-22.png │ │ │ │ │ ├── stock-tool-zoom-16.png │ │ │ │ │ └── stock-tool-zoom-22.png │ │ │ │ ├── icons8-help-32.png │ │ │ │ ├── info.png │ │ │ │ ├── lasso.png │ │ │ │ ├── marker.png │ │ │ │ ├── move.png │ │ │ │ ├── select.png │ │ │ │ └── zoom.png │ │ │ └── js │ │ │ │ ├── cbData.js │ │ │ │ ├── cellBrowser.js │ │ │ │ ├── maxHeat.js │ │ │ │ └── maxPlot.js │ │ ├── cellbrowser.py │ │ ├── convert.py │ │ ├── download.py │ │ ├── geneinfo.py │ │ ├── genes.py │ │ ├── hubmaker.py │ │ ├── sampleConfig │ │ │ ├── cellbrowser.conf │ │ │ ├── desc.conf │ │ │ ├── hub.conf │ │ │ ├── scanpy.conf │ │ │ ├── seurat.conf │ │ │ └── summary.html │ │ └── seurat.py │ └── test.py ├── cbScanpy ├── cbSeurat ├── cbTool ├── cbUpgrade └── makefile ├── test └── runTests.sh ├── todo.txt ├── todoDev.txt ├── ucsc ├── README.md ├── addTags ├── 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