diff --git a/src/components/plots/ClusterPlot.vue b/src/components/plots/ClusterPlot.vue index a803bcd..d71160c 100644 --- a/src/components/plots/ClusterPlot.vue +++ b/src/components/plots/ClusterPlot.vue @@ -180,7 +180,7 @@ export default { return d; }); - + let sampleNames = normalizedData.map((el) => el.donor_id); // create svg elements @@ -303,18 +303,59 @@ export default { yAxis.call(d3.axisLeft(signaturesY).tickSizeOuter(0)); - - // dispatch callbacks + /** + * Dispatch indicators + */ + let donorHighlight = vm.svg.append("g") + .attr("class", "donor-highlight"); + + donorHighlight.append("line") + .attr("x1", -(heatmapColWidth / 2)) + .attr("y1", 0) + .attr("x2", -(heatmapColWidth / 2)) + .attr("y2", vm.height) + .attr("stroke", "#000") + .attr("stroke-width", 1) + .attr("stroke-opacity", 0); + + donorHighlight.append("line") + .attr("x1", (heatmapColWidth / 2)) + .attr("y1", 0) + .attr("x2", (heatmapColWidth / 2)) + .attr("y2", vm.height) + .attr("stroke", "#000") + .attr("stroke-width", 1) + .attr("stroke-opacity", 0); + + /** + * Dispatch callbacks + */ dispatch.on("link-donor." + this.plotElemID, (donorID) => { - if(donorID != null) { - /// TODO + let i = sampleNames.indexOf(donorID); + if(i != -1) { + console.log(i); + // get x position of donor col + let donorTranslate = gHeatmap.selectAll(".donor-col").filter(":nth-child(" + (i+1) + ")").attr("transform"); + console.log(donorTranslate); + // move donor highlight group + donorHighlight + .attr("transform", donorTranslate); + + // show donor highlight + donorHighlight.selectAll("line") + .attr("stroke-opacity", 0.5); + } else { - // TODO + // hide donor highlight + donorHighlight.selectAll("line") + .attr("stroke-opacity", 0); } }); dispatch.on("link-donor-destroy." + this.plotElemID, () => { - // TODO + // hide donor highlight + donorHighlight.selectAll("line") + .attr("stroke-opacity", 0); }); } } diff --git a/src/components/plots/ExposuresPlot.vue b/src/components/plots/ExposuresPlot.vue index 09728bf..314987f 100644 --- a/src/components/plots/ExposuresPlot.vue +++ b/src/components/plots/ExposuresPlot.vue @@ -194,6 +194,9 @@ export default { // expand plot width to account for minimum bar width adjustments let plotWidth = barWidth * this.plotData.length; + /** + * Data preparation + */ // normalize data if necessary var normalizedData = vm.plotData; if(vm.options.normalizeExposures) { @@ -236,7 +239,9 @@ export default { let sampleNames = normalizedData.map((d) => { return d["donor_id"]; }); - // axis scales + /** + * Scales + */ let x = d3.scaleBand() .domain(sampleNames) .range([0, plotWidth]); @@ -253,9 +258,13 @@ export default { let series = stack(normalizedData); - // create svg elements + /** + * SVG Elements + */ + // remove existing svg element d3.select(this.plotSelector).select("svg").remove(); - + + // create new svg element vm.svg = d3.select(this.plotSelector) .append("svg") .attr("width", plotWidth + this.margin.left + this.margin.right) @@ -268,7 +277,9 @@ export default { let XContainer = vm.svg.append("g") .attr("transform", "translate(0,0)"); - + /** + * Signature exposure stacked bars + */ let layer = XContainer.selectAll(".layer") .data(series) .enter().append("g") @@ -296,7 +307,9 @@ export default { vm.enterSingleDonorMode(normalizedData[i]["donor_id"], normalizedData[i]["proj_id"]); }); - // clinical variables + /** + * Clinical variable heatmap + */ let clinicalY = {}; var var_i; for(var_i = 0; var_i < vm.selectedClinicalVariables.length; var_i++) { @@ -327,13 +340,16 @@ export default { vm.enterSingleDonorMode(normalizedData[i]["donor_id"], normalizedData[i]["proj_id"]); }); } - - // x Axis container + + /** + * Axes + */ + // x axis container let xAxis = XContainer.append("g") .attr("transform", "translate(0," + (vm.height + clinicalMarginY) + ")") .attr("class", "x_axis"); - // x Axis ticks + // x axis ticks xAxis.call(d3.axisBottom(x).tickSizeOuter(0).tickPadding(0)) .selectAll("text") .style("text-anchor", "end") @@ -341,7 +357,7 @@ export default { .attr("y", ".15em") .attr("transform", "rotate(-65)"); - // x Axis drag target + // x axis drag target xAxis.append("rect") .attr("class", "x-drag-target") .attr("width", plotWidth) @@ -356,14 +372,14 @@ export default { XContainer.attr("transform", "translate(" + newX + ",0)"); })); - // text label for the x axis + // x axis text label vm.svg.append("text") .attr("transform", "translate(" + (vm.width/2) + " ," + (vm.height + vm.margin.top + 70) + ")") .style("text-anchor", "middle") .text("Donor"); - // y Axis container + // y axis container let yAxis = vm.svg.append("g"); // y axis white background @@ -373,10 +389,10 @@ export default { .attr("transform", "translate(" + (-vm.margin.left) + ",0)") .attr("fill", (vm.options.xScroll ? "#FFF" : "transparent")); - // y Axis exposures ticks + // y axis exposures ticks yAxis.call(d3.axisLeft(y)); - // text label for the y axis + // y axis text label vm.svg.append("text") .attr("transform", "rotate(-90)") .attr("y", 0 - vm.margin.left + 10) @@ -385,7 +401,7 @@ export default { .style("text-anchor", "middle") .text("Signature Exposure"); - // y Axis for clinical vars + // y axis for clinical vars for(var_i = 0; var_i < vm.selectedClinicalVariables.length; var_i++) { var axisCV = vm.selectedClinicalVariables[var_i]; vm.svg.append("g") @@ -398,31 +414,55 @@ export default { .attr("transform", "rotate(-25)"); } - // dispatch callbacks + /** + * Dispatch indicators + */ + let donorHighlight = XContainer.append("g") + .attr("class", "donor-highlight"); + + donorHighlight.append("line") + .attr("x1", 0) + .attr("y1", 0) + .attr("x2", 0) + .attr("y2", vm.height) + .attr("stroke", "#000") + .attr("stroke-width", 1) + .attr("stroke-opacity", 0); + + donorHighlight.append("line") + .attr("x1", barWidth - marginX) + .attr("y1", 0) + .attr("x2", barWidth - marginX) + .attr("y2", vm.height) + .attr("stroke", "#000") + .attr("stroke-width", 1) + .attr("stroke-opacity", 0); + + /** + * Dispatch callbacks + */ dispatch.on("link-donor." + this.plotElemID, (donorID) => { - if(donorID != null) { - // clinical opacities - XContainer.selectAll(".clinical-group").selectAll(".clinical-rect") - .attr("fill-opacity", (d) => (d == donorID ? 1 : 0.4)) - .attr("stroke-opacity", (d) => (d == donorID ? 1 : 0.4)); - // signature opacities - vm.svg.selectAll(".layer").selectAll(".exposure-bar") - .attr("fill-opacity", (d, i) => ((normalizedData[i] && normalizedData[i]["donor_id"] == donorID) ? 1 : 0.4)); + let i = sampleNames.indexOf(donorID); + if(i != -1) { + // move donor highlight group + donorHighlight + .attr("transform", "translate(" + x(donorID) + ",0)"); + + // show donor highlight + donorHighlight.selectAll("line") + .attr("stroke-opacity", 0.5); + } else { - vm.svg.selectAll(".exposure-bar") - .attr("fill-opacity", 1); - XContainer.selectAll(".clinical-group").selectAll(".clinical-rect") - .attr("fill-opacity", 1) - .attr("stroke-opacity", 1); + // hide donor highlight + donorHighlight.selectAll("line") + .attr("stroke-opacity", 0); } }); dispatch.on("link-donor-destroy." + this.plotElemID, () => { - vm.svg.selectAll(".exposure-bar") - .attr("fill-opacity", 1); - XContainer.selectAll(".clinical-group").selectAll(".clinical-rect") - .attr("fill-opacity", 1) - .attr("stroke-opacity", 1); + // hide donor highlight + donorHighlight.selectAll("line") + .attr("stroke-opacity", 0); }); } } diff --git a/src/components/plots/KataegisPlot.vue b/src/components/plots/KataegisPlot.vue index b6349d9..c645082 100644 --- a/src/components/plots/KataegisPlot.vue +++ b/src/components/plots/KataegisPlot.vue @@ -141,12 +141,20 @@ export default { let plotHeight = barHeight * numSamples; var yMargin = 2; + /** + * Scales + */ var y = d3.scaleBand() .domain(sampleNames) .range([0, plotHeight]); + /** + * SVG Elements + */ + // remove existing svg element d3.select(this.plotSelector).select("svg").remove(); - + + // create new svg element vm.svg = d3.select(this.plotSelector) .append("svg") .attr("width", vm.width + vm.margin.left + vm.margin.right) @@ -247,7 +255,30 @@ export default { .attr("fill", "black"); } - // dispatch elements + /** + * Dispatch indicators + */ + let donorHighlight = YContainer.append("g") + .attr("class", "donor-highlight"); + + donorHighlight.append("line") + .attr("x1", 0) + .attr("y1", 0) + .attr("x2", vm.width) + .attr("y2", 0) + .attr("stroke", "#000") + .attr("stroke-width", 1) + .attr("stroke-opacity", 0); + + donorHighlight.append("line") + .attr("x1", 0) + .attr("y1", barHeight - yMargin) + .attr("x2", vm.width) + .attr("y2", barHeight - yMargin) + .attr("stroke", "#000") + .attr("stroke-width", 1) + .attr("stroke-opacity", 0); + let genomeHighlight = YContainer.append("g") .append("rect") .attr("x", 0) @@ -259,14 +290,16 @@ export default { .attr("fill", "silver"); - - // y Axis + /** + * Axes + */ + // y axis let yAxis = YContainer.append("g") .attr("class", "y_axis"); yAxis.call(d3.axisLeft(y).tickSizeOuter(0)); - // y Axis drag target + // y axis drag target yAxis.append("rect") .attr("class", "y-drag-target") .attr("width", vm.margin.left) @@ -282,7 +315,7 @@ export default { YContainer.attr("transform", "translate(0," + newY + ")"); })); - // text label for the y axis + // y axis text label vm.svg.append("text") .attr("transform", "rotate(-90)") .attr("y", 0 - vm.margin.left + 5) @@ -301,7 +334,7 @@ export default { .attr("height", plotHeight) .attr("fill", "#FFF"); - // x Axis + // x axis var xAxis; if(vm.showAllChromosomes) { for(chr_i = 0; chr_i < CHROMOSOMES.length; chr_i++) { @@ -347,27 +380,38 @@ export default { ); } - // text label for the x axis + // x axis text label vm.svg.append("text") .attr("transform", "translate(" + (vm.width/2) + " ," + (vm.height + vm.margin.top + 20) + ")") .style("text-anchor", "middle") .text("Chromosome" + (vm.showAllChromosomes ? "" : (" " + vm.selectedChromosome.name + " Location"))); - // dispatch callbacks + /** + * Dispatch callbacks + */ dispatch.on("link-donor." + this.plotElemID, function(donorID) { - if(donorID != null) { - vm.svg.selectAll(".sample-bar") - .attr("fill-opacity", (d) => (d == donorID ? 1 : 0.4)); + let i = sampleNames.indexOf(donorID); + if(i != -1) { + // move donor highlight group + donorHighlight + .attr("transform", "translate(0," + y(donorID) + ")"); + + // show donor highlight + donorHighlight.selectAll("line") + .attr("stroke-opacity", 0.5); + } else { - vm.svg.selectAll(".sample-bar") - .attr("fill-opacity", 1); + // hide donor highlight + donorHighlight.selectAll("line") + .attr("stroke-opacity", 0); } }); dispatch.on("link-donor-destroy." + this.plotElemID, function() { - vm.svg.selectAll(".sample-bar") - .attr("fill-opacity", 1); + // hide donor highlight + donorHighlight.selectAll("line") + .attr("stroke-opacity", 0); }); dispatch.on("link-genome." + this.plotElemID, function(location) {