@weng-lab/visualization 2.2.2 → 2.3.1

package/dist/visualization.es184.js

@@ -1,10 +1,27 @@
-function a(n) {
-  if ("bandwidth" in n)
-    return n.bandwidth();
-  const t = n.range(), d = n.domain();
-  return Math.abs(t[t.length - 1] - t[0]) / d.length;
+import o from "./visualization.es104.js";
+function p(b) {
+  let {
+    labelOffset: f,
+    labelProps: i,
+    orientation: e,
+    range: t,
+    tickLabelFontSize: s,
+    tickLength: a
+  } = b;
+  const n = e === o.left || e === o.top ? -1 : 1;
+  let r, l, m;
+  if (e === o.top || e === o.bottom) {
+    const u = e === o.bottom && typeof i.fontSize == "number" ? i.fontSize : 0;
+    r = (Number(t[0]) + Number(t[t.length - 1])) / 2, l = n * (a + f + s + u);
+  } else
+    r = n * ((Number(t[0]) + Number(t[t.length - 1])) / 2), l = -(a + f), m = `rotate(${n * 90})`;
+  return {
+    x: r,
+    y: l,
+    transform: m
+  };
 }
 export {
-  a as default
+  p as default
 };
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package/dist/visualization.es184.js.map

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package/dist/visualization.es185.js

@@ -1,7 +1,57 @@
-function s(r, e) {
-  r(e);
+import z from "./visualization.es99.js";
+import P from "./visualization.es104.js";
+import { jsxs as S, jsx as n } from "react/jsx-runtime";
+import v from "./visualization.es24.js";
+import C from "./visualization.es177.js";
+import j from "./visualization.es23.js";
+function M(a) {
+  let {
+    hideTicks: c,
+    horizontal: m,
+    orientation: k,
+    tickClassName: p,
+    tickComponent: i,
+    tickLabelProps: f,
+    tickStroke: l = "#222",
+    tickTransform: x,
+    ticks: d,
+    strokeWidth: u,
+    tickLineProps: h
+  } = a;
+  return d.map((L) => {
+    let {
+      value: b,
+      index: r,
+      from: T,
+      to: t,
+      formattedValue: e
+    } = L;
+    const o = f[r] ?? {}, y = Math.max(10, typeof o.fontSize == "number" && o.fontSize || 0), s = t.y + (m && k !== P.top ? y : 0);
+    return /* @__PURE__ */ S(v, {
+      className: z("visx-axis-tick", p),
+      transform: x,
+      children: [!c && /* @__PURE__ */ n(C, {
+        from: T,
+        to: t,
+        stroke: l,
+        strokeWidth: u,
+        strokeLinecap: "square",
+        ...h
+      }), i ? i({
+        ...o,
+        x: t.x,
+        y: s,
+        formattedValue: e
+      }) : /* @__PURE__ */ n(j, {
+        x: t.x,
+        y: s,
+        ...o,
+        children: e
+      })]
+    }, `visx-tick-${b}-${r}`);
+  });
 }
 export {
-  s as default
+  M as default
 };
 //# sourceMappingURL=visualization.es185.js.map

package/dist/visualization.es185.js.map

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package/dist/visualization.es186.js

@@ -1,20 +1,24 @@
-import n from "./visualization.es194.js";
-import t from "./visualization.es195.js";
-import o from "./visualization.es196.js";
-import s from "./visualization.es197.js";
-import d from "./visualization.es198.js";
-const e = {
-  ascending: d,
-  descending: s,
-  insideout: o,
-  none: t,
-  reverse: n
-};
-function f(r) {
-  return r && e[r] || e.none;
+class x {
+  x = 0;
+  y = 0;
+  constructor(t) {
+    let {
+      x: s = 0,
+      y: r = 0
+    } = t;
+    this.x = s, this.y = r;
+  }
+  value() {
+    return {
+      x: this.x,
+      y: this.y
+    };
+  }
+  toArray() {
+    return [this.x, this.y];
+  }
 }
 export {
-  e as STACK_ORDERS,
-  f as default
+  x as default
 };
 //# sourceMappingURL=visualization.es186.js.map

package/dist/visualization.es186.js.map

@@ -1 +1 @@
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package/dist/visualization.es187.js

@@ -1,20 +1,6 @@
-import f from "./visualization.es189.js";
-import o from "./visualization.es190.js";
-import r from "./visualization.es191.js";
-import i from "./visualization.es192.js";
-import s from "./visualization.es193.js";
-const e = {
-  expand: s,
-  diverging: i,
-  none: r,
-  silhouette: o,
-  wiggle: f
-};
-function p(t) {
-  return t && e[t] || e.none;
-}
+import { createContext as t } from "react";
+const o = t({ strict: !1 });
 export {
-  e as STACK_OFFSETS,
-  p as default
+  o as LazyContext
 };
 //# sourceMappingURL=visualization.es187.js.map

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package/dist/visualization.es188.js

@@ -1,36 +1,15 @@
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-import u from "./visualization.es250.js";
-import y from "./visualization.es191.js";
-import g from "./visualization.es195.js";
-function p(o, e) {
-  return o[e];
-}
-function d(o) {
-  const e = [];
-  return e.key = o, e;
-}
-function z() {
-  var o = u([]), e = g, a = y, s = p;
-  function n(r) {
-    var f = Array.from(o.apply(this, arguments), d), t, m = f.length, c = -1, i;
-    for (const l of r)
-      for (t = 0, ++c; t < m; ++t)
-        (f[t][c] = [0, +s(l, f[t].key, c, r)]).data = l;
-    for (t = 0, i = k(e(f)); t < m; ++t)
-      f[i[t]].index = t;
-    return a(f, i), f;
-  }
-  return n.keys = function(r) {
-    return arguments.length ? (o = typeof r == "function" ? r : u(Array.from(r)), n) : o;
-  }, n.value = function(r) {
-    return arguments.length ? (s = typeof r == "function" ? r : u(+r), n) : s;
-  }, n.order = function(r) {
-    return arguments.length ? (e = r == null ? g : typeof r == "function" ? r : u(Array.from(r)), n) : e;
-  }, n.offset = function(r) {
-    return arguments.length ? (a = r ?? y, n) : a;
-  }, n;
+import { getInitializedFeatureDefinitions as o } from "./visualization.es189.js";
+import { setFeatureDefinitions as n } from "./visualization.es190.js";
+function s(e) {
+  const i = o();
+  for (const t in e)
+    i[t] = {
+      ...i[t],
+      ...e[t]
+    };
+  n(i);
 }
 export {
-  z as default
+  s as loadFeatures
 };
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+            value: e.value.toFixed(2)
+          }, h = k ? a?.point === e : a?.label === c.label && a?.value === c.value, i = e.radius ?? 4;
+          return /* @__PURE__ */ p("circle", { cx: f, cy: d, r: h ? i + 1 : i, stroke: h ? "#000000" : e.stroke ?? "none", fill: e.color ?? t.violinColor ?? "#000000", opacity: e.opacity ?? t.opacity ?? 1, pointerEvents: "all", onMouseMove: (v) => M(v, c, e), onClick: () => O(e) }, `outlier-${s}`);
+        }),
+        t.data.length >= (l?.pointDisplayThreshold ?? 3) && l?.showAllPoints && te.map((e, s) => {
+          const r = m(e.value), x = m(e.value), f = l?.jitter ?? 0, d = `${t.label}-${e}-${s}`, c = f > 0 ? (ue(d) - 0.5) * 2 * f : 0, h = o ? x : n + c, i = o ? n + c : r, v = {
+            label: t.label,
+            value: e.value.toFixed(2)
+          }, B = k ? a?.point === e : a?.label === v.label && a?.value === v.value, I = e.radius ?? 2, y = B ? I + 1 : I;
+          return /* @__PURE__ */ p("path", { d: `M ${h},${i} m -${y},0 a ${y},${y} 0 1,0 ${2 * y},0 a ${y},${y} 0 1,0 -${2 * y},0`, stroke: B ? "black" : e.stroke ?? "none", fill: e.color ?? t.violinColor ?? "black", opacity: e.opacity ?? t.opacity ?? 1, pointerEvents: "all", onMouseMove: (le) => M(le, v, e), onClick: () => O(e) }, `${$}-point-${s}`);
+        }),
+        t.data.length < (l?.pointDisplayThreshold ?? 3) && t.data.map((e, s) => {
+          const r = m(e.value), x = m(e.value), f = o ? x : n, d = o ? n : r, c = e.radius ?? 2, h = {
+            label: t.label,
+            value: e.value.toFixed(2)
+          }, i = k ? a?.point === e : a?.label === h.label && a?.value === h.value;
+          return /* @__PURE__ */ p("circle", { cx: f, cy: d, r: i ? c + 1 : c, stroke: i ? "black" : e.stroke ?? "none", fill: e.color ?? t.violinColor ?? "black", opacity: e.opacity ?? t.opacity ?? 1, pointerEvents: "all", onMouseMove: (v) => M(v, h, e), onClick: () => O(e) }, `thresh-${s}`);
+        })
+      ] }, `group-${$}`),
+      V && a && /* @__PURE__ */ p(xe, { children: /* @__PURE__ */ p(de, { left: X ?? 0, top: N ?? 0, data: a, open: V, pointTooltipBody: k }, `${X}-${N}`) })
+    ]
+  }, `frag-${$}`);
 };
-function _(h, t) {
-  return h + t;
-}
-function v(h, t) {
-  return h + t;
-}
 export {
-  q as default
+  Re as default
 };
 //# sourceMappingURL=visualization.es19.js.map

package/dist/visualization.es19.js.map

@@ -1 +1 @@
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+{"version":3,"file":"visualization.es19.js","sources":["../src/components/ViolinPlot/singleViolin.tsx"],"sourcesContent":["import { scaleLinear } from '@visx/scale';\nimport { max as d3max } from '@visx/vendor/d3-array';\nimport { curveBasis } from '@visx/curve';\nimport { line } from '@visx/shape';\nimport { range } from '@visx/vendor/d3-array';\nimport React, { useCallback, useMemo } from \"react\";\nimport CrossPlot from \"./crossPlot\";\nimport { calculateBoxStats, scottRule, silvermanRule, kernelDensityEstimator, gaussian, seededRandom } from \"./helpers\";\nimport { ViolinPoint, SingleViolinProps, TooltipData } from \"./types\";\nimport ViolinTooltip from \"./violinTooltip\";\nimport { Portal, useTooltip } from \"@visx/tooltip\";\n\nconst SingleViolin = <T,>({\n    distribution,\n    distIndex,\n    violinProps,\n    crossProps,\n    valueScale,\n    labelScale,\n    offset,\n    labels,\n    disableCrossPlot,\n    disableViolinPlot,\n    horizontal,\n    pointTooltipBody,\n    onViolinClicked,\n    onPointClicked\n}: SingleViolinProps<T>) => {\n\n    const {\n        tooltipData,\n        tooltipLeft,\n        tooltipTop,\n        tooltipOpen,\n        showTooltip,\n        hideTooltip,\n    } = useTooltip<TooltipData<T>>();\n\n    const data = distribution.data.flatMap(d => d.value)\n\n    //get all the stats for the box plot\n    const { min, max, firstQuartile, thirdQuartile, median, outliers } = calculateBoxStats(data, crossProps?.outliers ?? \"all\");\n\n    const outlierPoints: ViolinPoint<T>[] = distribution.data\n        .filter(d => outliers.includes(d.value))\n        .map(d => ({\n            ...d,\n            outlier: true\n        }));\n    const pointsNoOutliers: ViolinPoint<T>[] = distribution.data.filter(d => !outliers.includes(d.value))\n\n    const violinData = useMemo(() => {\n        const step = (max - min) / Math.max(100, data.length);\n        const ticks = range(min, max, step);\n\n        //bandwidth / binwidth for smoothing, based on user input\n        const bandwidth = typeof violinProps?.bandwidth === \"number\"\n            ? violinProps.bandwidth\n            : typeof violinProps?.bandwidth === \"function\"\n                ? violinProps.bandwidth(data)\n                : violinProps?.bandwidth === \"scott\"\n                    ? scottRule(data)\n                    : silvermanRule(data);\n\n        const kde = kernelDensityEstimator(gaussian(bandwidth), ticks);\n\n        const densityData = kde(data);\n\n        return [...densityData].sort((a, b) => a.value - b.value)\n    }, [data, max, min, violinProps])\n\n    const violinWidth = Math.min(labelScale.bandwidth(), 50);\n    const boxWidth = crossProps?.medianWidth ?? violinWidth * .25;\n\n    const violinTooltip: TooltipData<T> = useMemo(() => ({\n        label: distribution.label,\n        sampleSize: distribution.data.length,\n        median: median.toFixed(2),\n        firstQuartile: firstQuartile.toFixed(2),\n        thirdQuartile: thirdQuartile.toFixed(2)\n    }), [distribution.label, distribution.data.length, median, firstQuartile, thirdQuartile]);\n\n    const handleMouseMove = useCallback((event: React.MouseEvent<SVGPathElement>, data: TooltipData<T>, point?: ViolinPoint<T>) => {\n        showTooltip({\n            tooltipData: point && pointTooltipBody ? { point: point } : data,\n            tooltipLeft: event.pageX,\n            tooltipTop: event.pageY,\n        });\n    }, [pointTooltipBody, showTooltip]);\n\n    const handleViolinClick = () => {\n        if (!onViolinClicked || !tooltipData) return;\n\n        if (tooltipData) {\n            onViolinClicked(distribution);\n        }\n    };\n\n    const handlePointClick = (point: ViolinPoint<T>) => {\n        if (!onPointClicked || !tooltipData) return;\n\n        if (tooltipData) {\n            onPointClicked(point);\n        }\n    };\n\n    //center of each Violin\n    const violinCenter = horizontal ? (labelScale(labels[distIndex]) ?? 0) + violinWidth / 2 : (labelScale(labels[distIndex]) ?? 0) + offset + labelScale.bandwidth() / 2;\n    const widthScale = scaleLinear()\n        .domain([0, d3max(violinData, d => Math.abs(d.count)) || 1])\n        .range([0, violinWidth / 2]);\n\n    //filter out nan values if any\n    const filteredData = violinData.filter(d => d && d.count != null && d.value != null);\n\n    //mirror the data so that both sides are drawn\n    let points = [\n        ...filteredData.map(d => ({\n            x: violinCenter + (widthScale(d.count) as number),\n            y: valueScale(d.value),\n        })),\n        ...filteredData.slice().reverse().map(d => ({\n            x: violinCenter - (widthScale(d.count) as number),\n            y: valueScale(d.value),\n        }))\n    ];\n\n    // close the path at the second point instead of the first since points 0,1 are closer together\n    if (points.length > 2) {\n        const modifiedPoints = points.slice(1);\n        modifiedPoints.push(points[0]);\n        modifiedPoints.push(points[1]);\n        points = modifiedPoints;\n    }\n\n    const violinPath = line<{ x: number; y: number }>()\n        .x(d => horizontal ? d.y : d.x)\n        .y(d => horizontal ? d.x : d.y)\n        .curve(curveBasis)(points) ?? null;\n\n    return (\n        <React.Fragment key={`frag-${distIndex}`}>\n            {\n                //display plots if enough data provided\n                <g\n                    key={`group-${distIndex}`}\n                    onMouseLeave={hideTooltip}\n                    transform={horizontal ? `translate(${offset}, 0)` : `translate(0, 0)`}\n                >\n                    {distribution.data.length >= (violinProps?.pointDisplayThreshold ?? 3) && !disableViolinPlot && violinPath && (\n                        <>\n                            <path\n                                d={violinPath}\n                                fill={distribution.violinColor ?? 'none'}\n                                fillOpacity={distribution.opacity ?? 0.3}\n                                stroke={distribution.violinColor ?? 'black'}\n                                strokeOpacity={distribution.opacity ?? 1}\n                                strokeWidth={\n                                    tooltipData === violinTooltip\n                                        ? (violinProps?.stroke ?? 1) + 1\n                                        : violinProps?.stroke ?? 1\n                                }\n                                pointerEvents=\"all\"\n                                onMouseMove={(e) => handleMouseMove(e, violinTooltip)}\n                                onClick={handleViolinClick}\n                            />\n                        </>\n                    )\n                    }\n                    {distribution.data.length >= (violinProps?.pointDisplayThreshold ?? 3) && !disableCrossPlot &&\n                        <CrossPlot\n                            crossProps={crossProps}\n                            left={horizontal ? 0 : violinCenter}\n                            top={horizontal ? violinCenter : 0}\n                            median={median}\n                            firstQuartile={firstQuartile}\n                            thirdQuartile={thirdQuartile}\n                            valueScale={valueScale}\n                            medianWidth={boxWidth}\n                            tooltipData={tooltipData ?? {}}\n                            handleMouseMove={handleMouseMove}\n                            handleCrossClick={handleViolinClick}\n                            disableViolinPlot={disableViolinPlot}\n                            tooltip={violinTooltip}\n                            horizontal={horizontal}\n                        />\n                    }\n                    {/* Outliers */}\n                    {outlierPoints.map((outlier, index) => {\n                        const vertcy = valueScale(outlier.value);\n                        const horizoncx = valueScale(outlier.value)\n                        const cx = horizontal ? horizoncx : violinCenter\n                        const cy = horizontal ? violinCenter : vertcy\n\n                        const pointTooltip = {\n                            outlier: true,\n                            label: distribution.label,\n                            value: outlier.value.toFixed(2),\n                        };\n\n                        const isHighlighted = pointTooltipBody\n                            ? tooltipData?.point === outlier :\n                            tooltipData?.label === pointTooltip.label &&\n                            tooltipData?.value === pointTooltip.value;\n\n                        const radius = outlier.radius ?? 4\n\n                        return (\n                            <circle\n                                key={`outlier-${index}`}\n                                cx={cx}\n                                cy={cy}\n                                r={isHighlighted ? radius + 1 : radius}\n                                stroke={isHighlighted ? \"#000000\" : (outlier.stroke ?? \"none\")}\n                                fill={outlier.color ?? distribution.violinColor ?? \"#000000\"}\n                                opacity={outlier.opacity ?? distribution.opacity ?? 1}\n                                pointerEvents=\"all\"\n                                onMouseMove={(e) => handleMouseMove(e, pointTooltip, outlier)}\n                                onClick={() => handlePointClick(outlier)}\n                            />\n                        )\n                    })}\n                    {/* show all poionts for each distribution */}\n                    {distribution.data.length >= (violinProps?.pointDisplayThreshold ?? 3) && violinProps?.showAllPoints &&\n                        pointsNoOutliers.map((point: ViolinPoint<T>, index: number) => {\n\n                            const vertcy = valueScale(point.value);\n                            const horizoncx = valueScale(point.value)\n\n                            const jitterAmount = violinProps?.jitter ?? 0;\n                            const seed = `${distribution.label}-${point}-${index}`;\n                            const jitterX = jitterAmount > 0\n                                ? (seededRandom(seed) - 0.5) * 2 * jitterAmount\n                                : 0;\n\n                            const cx = horizontal ? horizoncx : violinCenter + jitterX;\n                            const cy = horizontal ? violinCenter + jitterX : vertcy\n\n                            const pointTooltip = {\n                                label: distribution.label,\n                                value: point.value.toFixed(2),\n                            };\n\n                            const isHighlighted = pointTooltipBody\n                                ? tooltipData?.point === point :\n                                tooltipData?.label === pointTooltip.label &&\n                                tooltipData?.value === pointTooltip.value;\n\n                            const r = point.radius ?? 2\n                            const radius = isHighlighted ? r + 1 : r;\n\n                            return (\n                                <path\n                                    key={`${distIndex}-point-${index}`}\n                                    d={`M ${cx},${cy} m -${radius},0 a ${radius},${radius} 0 1,0 ${2 * radius},0 a ${radius},${radius} 0 1,0 -${2 * radius},0`}\n                                    stroke={isHighlighted ? \"black\" : (point.stroke ?? \"none\")}\n                                    fill={point.color ?? distribution.violinColor ?? \"black\"}\n                                    opacity={point.opacity ?? distribution.opacity ?? 1}\n                                    pointerEvents=\"all\"\n                                    onMouseMove={(e) => handleMouseMove(e, pointTooltip, point)}\n                                    onClick={() => handlePointClick(point)}\n                                />\n                            );\n                        })\n                    }\n                    {/* display points if data points are less than threshold (3) */}\n                    {distribution.data.length < (violinProps?.pointDisplayThreshold ?? 3) &&\n                        distribution.data.map((point: ViolinPoint<T>, index: number) => {\n                            const vertcy = valueScale(point.value);\n                            const horizoncx = valueScale(point.value)\n                            const cx = horizontal ? horizoncx : violinCenter\n                            const cy = horizontal ? violinCenter : vertcy\n                            const radius = point.radius ?? 2;\n\n                            const pointTooltip = {\n                                label: distribution.label,\n                                value: point.value.toFixed(2),\n                            };\n\n                            const isHighlighted = pointTooltipBody\n                                ? tooltipData?.point === point :\n                                tooltipData?.label === pointTooltip.label &&\n                                tooltipData?.value === pointTooltip.value;\n\n      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&& (\n                <Portal>\n                    <ViolinTooltip\n                        left={tooltipLeft ?? 0}\n                        top={tooltipTop ?? 0}\n                        data={tooltipData}\n                        open={tooltipOpen}\n                        key={`${tooltipLeft}-${tooltipTop}`}\n                        pointTooltipBody={pointTooltipBody}\n                    />\n                </Portal>\n            )}\n        </React.Fragment>\n    )\n}\n\nexport default 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