@ggterm/core 0.2.16 → 0.2.17

package/dist/cli-plot.js

@@ -3636,6 +3636,91 @@ function renderGeomTreemap(data, geom, aes, scales, canvas) {
     renderNode(validRoots[i], i, 0);
   }
 }
+function renderGeomVolcano(data, geom, aes, scales, canvas) {
+  const fcThreshold = geom.params.fc_threshold ?? 1;
+  const pThreshold = geom.params.p_threshold ?? 0.05;
+  const yIsNegLog10 = geom.params.y_is_neglog10 ?? false;
+  const upColor = parseColorToRgba(geom.params.up_color ?? "#e41a1c");
+  const downColor = parseColorToRgba(geom.params.down_color ?? "#377eb8");
+  const nsColor = parseColorToRgba(geom.params.ns_color ?? "#999999");
+  const showThresholds = geom.params.show_thresholds ?? true;
+  const nLabels = geom.params.n_labels ?? 0;
+  const pointChar = geom.params.point_char ?? "●";
+  const negLog10PThreshold = -Math.log10(pThreshold);
+  const points = [];
+  for (const row of data) {
+    const xVal = Number(row[aes.x]);
+    let yVal = Number(row[aes.y]);
+    if (isNaN(xVal) || isNaN(yVal) || yVal <= 0)
+      continue;
+    if (!yIsNegLog10) {
+      yVal = -Math.log10(yVal);
+    }
+    let status = "ns";
+    if (yVal >= negLog10PThreshold) {
+      if (xVal >= fcThreshold) {
+        status = "up";
+      } else if (xVal <= -fcThreshold) {
+        status = "down";
+      }
+    }
+    const label = aes.label ? String(row[aes.label] ?? "") : undefined;
+    points.push({
+      row,
+      x: xVal,
+      y: yVal,
+      significance: yVal,
+      status,
+      label
+    });
+  }
+  if (showThresholds) {
+    const thresholdColor = { r: 150, g: 150, b: 150, a: 0.7 };
+    const cy = Math.round(scales.y.map(negLog10PThreshold));
+    const startX = Math.round(scales.x.range[0]);
+    const endX = Math.round(scales.x.range[1]);
+    for (let x = startX;x <= endX; x += 2) {
+      canvas.drawChar(x, cy, "─", thresholdColor);
+    }
+    const cxPos = Math.round(scales.x.map(fcThreshold));
+    const cxNeg = Math.round(scales.x.map(-fcThreshold));
+    const startY = Math.round(Math.min(scales.y.range[0], scales.y.range[1]));
+    const endY = Math.round(Math.max(scales.y.range[0], scales.y.range[1]));
+    for (let y = startY;y <= endY; y += 2) {
+      canvas.drawChar(cxPos, y, "│", thresholdColor);
+      canvas.drawChar(cxNeg, y, "│", thresholdColor);
+    }
+  }
+  for (const point of points) {
+    if (point.status === "ns") {
+      const cx = Math.round(scales.x.map(point.x));
+      const cy = Math.round(scales.y.map(point.y));
+      canvas.drawPoint(cx, cy, nsColor, pointChar);
+    }
+  }
+  for (const point of points) {
+    if (point.status !== "ns") {
+      const cx = Math.round(scales.x.map(point.x));
+      const cy = Math.round(scales.y.map(point.y));
+      const color = point.status === "up" ? upColor : downColor;
+      canvas.drawPoint(cx, cy, color, pointChar);
+    }
+  }
+  if (nLabels > 0 && aes.label) {
+    const significantPoints = points.filter((p) => p.status !== "ns" && p.label).sort((a, b) => b.significance - a.significance).slice(0, nLabels);
+    const labelColor = { r: 50, g: 50, b: 50, a: 1 };
+    for (const point of significantPoints) {
+      const cx = Math.round(scales.x.map(point.x));
+      const cy = Math.round(scales.y.map(point.y));
+      const label = point.label;
+      const labelX = cx + 1;
+      const labelY = cy;
+      for (let i = 0;i < label.length; i++) {
+        canvas.drawChar(labelX + i, labelY, label[i], labelColor);
+      }
+    }
+  }
+}
 function renderGeom(data, geom, aes, scales, canvas, coordType) {
   switch (geom.type) {
     case "point":
@@ -3761,6 +3846,9 @@ function renderGeom(data, geom, aes, scales, canvas, coordType) {
     case "treemap":
       renderGeomTreemap(data, geom, aes, scales, canvas);
       break;
+    case "volcano":
+      renderGeomVolcano(data, geom, aes, scales, canvas);
+      break;
     default:
       break;
   }
@@ -7382,6 +7470,31 @@ function geom_treemap(options = {}) {
   };
 }
 
+// src/geoms/volcano.ts
+function geom_volcano(options = {}) {
+  return {
+    type: "volcano",
+    stat: "identity",
+    position: "identity",
+    params: {
+      fc_threshold: options.fc_threshold ?? 1,
+      p_threshold: options.p_threshold ?? 0.05,
+      y_is_neglog10: options.y_is_neglog10 ?? false,
+      up_color: options.up_color ?? "#e41a1c",
+      down_color: options.down_color ?? "#377eb8",
+      ns_color: options.ns_color ?? "#999999",
+      show_thresholds: options.show_thresholds ?? true,
+      threshold_linetype: options.threshold_linetype ?? "dashed",
+      n_labels: options.n_labels ?? 0,
+      size: options.size ?? 1,
+      alpha: options.alpha ?? 0.6,
+      point_char: options.point_char ?? "●",
+      show_legend: options.show_legend ?? true,
+      classify: options.classify
+    }
+  };
+}
+
 // src/geoms/index.ts
 var init_geoms = __esm(() => {
   init_ridgeline();
@@ -11890,6 +12003,7 @@ __export(exports_src, {
   getCapabilities: () => getCapabilities,
   getAvailablePalettes: () => getAvailablePalettes,
   geom_waffle: () => geom_waffle,
+  geom_volcano: () => geom_volcano,
   geom_vline: () => geom_vline,
   geom_violin: () => geom_violin,
   geom_treemap: () => geom_treemap,
@@ -12874,7 +12988,8 @@ var GEOM_TYPES = [
   "icicle",
   "corrmat",
   "sankey",
-  "treemap"
+  "treemap",
+  "volcano"
 ];
 var datePattern = /^\d{4}-\d{2}-\d{2}/;
 function fileExists(path) {
@@ -13508,6 +13623,9 @@ If you want a univariate plot, try: histogram, density, bar, qq, or freqpoly`);
     case "treemap":
       plot = plot.geom(geom_treemap());
       break;
+    case "volcano":
+      plot = plot.geom(geom_volcano());
+      break;
     case "point":
     default:
       plot = plot.geom(geom_point());

package/dist/cli.js

@@ -3636,6 +3636,91 @@ function renderGeomTreemap(data, geom, aes, scales, canvas) {
     renderNode(validRoots[i], i, 0);
   }
 }
+function renderGeomVolcano(data, geom, aes, scales, canvas) {
+  const fcThreshold = geom.params.fc_threshold ?? 1;
+  const pThreshold = geom.params.p_threshold ?? 0.05;
+  const yIsNegLog10 = geom.params.y_is_neglog10 ?? false;
+  const upColor = parseColorToRgba(geom.params.up_color ?? "#e41a1c");
+  const downColor = parseColorToRgba(geom.params.down_color ?? "#377eb8");
+  const nsColor = parseColorToRgba(geom.params.ns_color ?? "#999999");
+  const showThresholds = geom.params.show_thresholds ?? true;
+  const nLabels = geom.params.n_labels ?? 0;
+  const pointChar = geom.params.point_char ?? "●";
+  const negLog10PThreshold = -Math.log10(pThreshold);
+  const points = [];
+  for (const row of data) {
+    const xVal = Number(row[aes.x]);
+    let yVal = Number(row[aes.y]);
+    if (isNaN(xVal) || isNaN(yVal) || yVal <= 0)
+      continue;
+    if (!yIsNegLog10) {
+      yVal = -Math.log10(yVal);
+    }
+    let status = "ns";
+    if (yVal >= negLog10PThreshold) {
+      if (xVal >= fcThreshold) {
+        status = "up";
+      } else if (xVal <= -fcThreshold) {
+        status = "down";
+      }
+    }
+    const label = aes.label ? String(row[aes.label] ?? "") : undefined;
+    points.push({
+      row,
+      x: xVal,
+      y: yVal,
+      significance: yVal,
+      status,
+      label
+    });
+  }
+  if (showThresholds) {
+    const thresholdColor = { r: 150, g: 150, b: 150, a: 0.7 };
+    const cy = Math.round(scales.y.map(negLog10PThreshold));
+    const startX = Math.round(scales.x.range[0]);
+    const endX = Math.round(scales.x.range[1]);
+    for (let x = startX;x <= endX; x += 2) {
+      canvas.drawChar(x, cy, "─", thresholdColor);
+    }
+    const cxPos = Math.round(scales.x.map(fcThreshold));
+    const cxNeg = Math.round(scales.x.map(-fcThreshold));
+    const startY = Math.round(Math.min(scales.y.range[0], scales.y.range[1]));
+    const endY = Math.round(Math.max(scales.y.range[0], scales.y.range[1]));
+    for (let y = startY;y <= endY; y += 2) {
+      canvas.drawChar(cxPos, y, "│", thresholdColor);
+      canvas.drawChar(cxNeg, y, "│", thresholdColor);
+    }
+  }
+  for (const point of points) {
+    if (point.status === "ns") {
+      const cx = Math.round(scales.x.map(point.x));
+      const cy = Math.round(scales.y.map(point.y));
+      canvas.drawPoint(cx, cy, nsColor, pointChar);
+    }
+  }
+  for (const point of points) {
+    if (point.status !== "ns") {
+      const cx = Math.round(scales.x.map(point.x));
+      const cy = Math.round(scales.y.map(point.y));
+      const color = point.status === "up" ? upColor : downColor;
+      canvas.drawPoint(cx, cy, color, pointChar);
+    }
+  }
+  if (nLabels > 0 && aes.label) {
+    const significantPoints = points.filter((p) => p.status !== "ns" && p.label).sort((a, b) => b.significance - a.significance).slice(0, nLabels);
+    const labelColor = { r: 50, g: 50, b: 50, a: 1 };
+    for (const point of significantPoints) {
+      const cx = Math.round(scales.x.map(point.x));
+      const cy = Math.round(scales.y.map(point.y));
+      const label = point.label;
+      const labelX = cx + 1;
+      const labelY = cy;
+      for (let i = 0;i < label.length; i++) {
+        canvas.drawChar(labelX + i, labelY, label[i], labelColor);
+      }
+    }
+  }
+}
 function renderGeom(data, geom, aes, scales, canvas, coordType) {
   switch (geom.type) {
     case "point":
@@ -3761,6 +3846,9 @@ function renderGeom(data, geom, aes, scales, canvas, coordType) {
     case "treemap":
       renderGeomTreemap(data, geom, aes, scales, canvas);
       break;
+    case "volcano":
+      renderGeomVolcano(data, geom, aes, scales, canvas);
+      break;
     default:
       break;
   }
@@ -7377,6 +7465,31 @@ function geom_treemap(options = {}) {
   };
 }
 
+// src/geoms/volcano.ts
+function geom_volcano(options = {}) {
+  return {
+    type: "volcano",
+    stat: "identity",
+    position: "identity",
+    params: {
+      fc_threshold: options.fc_threshold ?? 1,
+      p_threshold: options.p_threshold ?? 0.05,
+      y_is_neglog10: options.y_is_neglog10 ?? false,
+      up_color: options.up_color ?? "#e41a1c",
+      down_color: options.down_color ?? "#377eb8",
+      ns_color: options.ns_color ?? "#999999",
+      show_thresholds: options.show_thresholds ?? true,
+      threshold_linetype: options.threshold_linetype ?? "dashed",
+      n_labels: options.n_labels ?? 0,
+      size: options.size ?? 1,
+      alpha: options.alpha ?? 0.6,
+      point_char: options.point_char ?? "●",
+      show_legend: options.show_legend ?? true,
+      classify: options.classify
+    }
+  };
+}
+
 // src/geoms/index.ts
 var init_geoms = __esm(() => {
   init_ridgeline();

package/dist/geoms/index.d.ts

@@ -34,4 +34,5 @@ export { geom_flame, geom_icicle, type FlameOptions } from './flame';
 export { geom_corrmat, type CorrmatOptions } from './corrmat';
 export { geom_sankey, type SankeyOptions } from './sankey';
 export { geom_treemap, type TreemapOptions } from './treemap';
+export { geom_volcano, type VolcanoOptions } from './volcano';
 //# sourceMappingURL=index.d.ts.map

package/dist/geoms/index.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/geoms/index.ts"],"names":[],"mappings":"AAAA;;GAEG;AAEH,OAAO,EAAE,UAAU,EAAE,KAAK,YAAY,EAAE,MAAM,SAAS,CAAA;AACvD,OAAO,EAAE,SAAS,EAAE,UAAU,EAAE,UAAU,EAAE,KAAK,WAAW,EAAE,MAAM,QAAQ,CAAA;AAC5E,OAAO,EAAE,SAAS,EAAE,KAAK,WAAW,EAAE,MAAM,QAAQ,CAAA;AACpD,OAAO,EAAE,QAAQ,EAAE,QAAQ,EAAE,KAAK,UAAU,EAAE,MAAM,OAAO,CAAA;AAC3D,OAAO,EAAE,SAAS,EAAE,UAAU,EAAE,KAAK,WAAW,EAAE,MAAM,QAAQ,CAAA;AAChE,OAAO,EAAE,SAAS,EAAE,WAAW,EAAE,KAAK,WAAW,EAAE,MAAM,QAAQ,CAAA;AACjE,OAAO,EAAE,cAAc,EAAE,aAAa,EAAE,KAAK,gBAAgB,EAAE,KAAK,eAAe,EAAE,MAAM,aAAa,CAAA;AACxG,OAAO,EAAE,YAAY,EAAE,KAAK,cAAc,EAAE,MAAM,WAAW,CAAA;AAC7D,OAAO,EAAE,YAAY,EAAE,KAAK,cAAc,EAAE,MAAM,WAAW,CAAA;AAC7D,OAAO,EAAE,YAAY,EAAE,UAAU,EAAE,KAAK,cAAc,EAAE,MAAM,WAAW,CAAA;AACzE,OAAO,EAAE,WAAW,EAAE,KAAK,aAAa,EAAE,MAAM,UAAU,CAAA;AAC1D,OAAO,EAAE,SAAS,EAAE,KAAK,WAAW,EAAE,MAAM,QAAQ,CAAA;AACpD,OAAO,EAAE,QAAQ,EAAE,KAAK,UAAU,EAAE,MAAM,OAAO,CAAA;AAGjD,OAAO,EAAE,WAAW,EAAE,KAAK,aAAa,EAAE,MAAM,UAAU,CAAA;AAC1D,OAAO,EAAE,SAAS,EAAE,WAAW,EAAE,KAAK,WAAW,EAAE,MAAM,QAAQ,CAAA;AACjE,OAAO,EAAE,UAAU,EAAE,KAAK,YAAY,EAAE,MAAM,SAAS,CAAA;AACvD,OAAO,EAAE,YAAY,EAAE,mBAAmB,EAAE,eAAe,EAAE,KAAK,cAAc,EAAE,MAAM,WAAW,CAAA;AACnG,OAAO,EACL,aAAa,EACb,cAAc,EACd,aAAa,EACb,cAAc,EACd,eAAe,EACf,KAAK,eAAe,GACrB,MAAM,YAAY,CAAA;AACnB,OAAO,EAAE,SAAS,EAAE,WAAW,EAAE,KAAK,WAAW,EAAE,KAAK,aAAa,EAAE,MAAM,QAAQ,CAAA;AACrF,OAAO,EAAE,OAAO,EAAE,YAAY,EAAE,KAAK,SAAS,EAAE,KAAK,aAAa,EAAE,MAAM,MAAM,CAAA;AAChF,OAAO,EAAE,cAAc,EAAE,QAAQ,EAAE,KAAK,gBAAgB,EAAE,MAAM,aAAa,CAAA;AAC7E,OAAO,EAAE,aAAa,EAAE,gBAAgB,EAAE,KAAK,eAAe,EAAE,MAAM,YAAY,CAAA;AAClF,OAAO,EAAE,aAAa,EAAE,KAAK,eAAe,EAAE,MAAM,YAAY,CAAA;AAChE,OAAO,EAAE,aAAa,EAAE,KAAK,eAAe,EAAE,MAAM,YAAY,CAAA;AAChE,OAAO,EAAE,WAAW,EAAE,KAAK,aAAa,EAAE,MAAM,UAAU,CAAA;AAC1D,OAAO,EAAE,cAAc,EAAE,KAAK,gBAAgB,EAAE,UAAU,EAAE,UAAU,EAAE,MAAM,aAAa,CAAA;AAC3F,OAAO,EAAE,WAAW,EAAE,KAAK,aAAa,EAAE,MAAM,UAAU,CAAA;AAC1D,OAAO,EAAE,YAAY,EAAE,KAAK,cAAc,EAAE,YAAY,EAAE,YAAY,EAAE,MAAM,WAAW,CAAA;AAGzF,OAAO,EAAE,aAAa,EAAE,KAAK,eAAe,EAAE,MAAM,YAAY,CAAA;AAChE,OAAO,EAAE,UAAU,EAAE,WAAW,EAAE,KAAK,YAAY,EAAE,MAAM,SAAS,CAAA;AACpE,OAAO,EAAE,YAAY,EAAE,KAAK,cAAc,EAAE,MAAM,WAAW,CAAA;AAC7D,OAAO,EAAE,WAAW,EAAE,KAAK,aAAa,EAAE,MAAM,UAAU,CAAA;AAC1D,OAAO,EAAE,YAAY,EAAE,KAAK,cAAc,EAAE,MAAM,WAAW,CAAA;AAC7D,OAAO,EAAE,YAAY,EAAE,KAAK,cAAc,EAAE,MAAM,WAAW,CAAA"}

package/dist/geoms/volcano.d.ts

@@ -0,0 +1,71 @@
+/**
+ * geom_volcano - Volcano plot for differential expression analysis
+ *
+ * Visualizes statistical significance vs magnitude of change, commonly used
+ * in genomics for differential expression results. Points are colored by
+ * significance status: up-regulated, down-regulated, or not significant.
+ *
+ * @example
+ * ```ts
+ * // Basic volcano plot
+ * gg(deResults)
+ *   .aes({ x: 'log2FoldChange', y: 'pvalue', label: 'gene' })
+ *   .geom(geom_volcano())
+ *
+ * // With custom thresholds and labels
+ * gg(deResults)
+ *   .aes({ x: 'log2FC', y: 'padj', label: 'symbol' })
+ *   .geom(geom_volcano({
+ *     fc_threshold: 1.5,
+ *     p_threshold: 0.01,
+ *     n_labels: 10,
+ *     show_thresholds: true
+ *   }))
+ * ```
+ */
+import type { Geom } from '../types';
+export interface VolcanoOptions {
+    /** Log2 fold change threshold for significance (default: 1, meaning 2-fold) */
+    fc_threshold?: number;
+    /** P-value threshold for significance (default: 0.05) */
+    p_threshold?: number;
+    /** Whether y-axis is already -log10 transformed (default: false, will transform) */
+    y_is_neglog10?: boolean;
+    /** Color for up-regulated points (default: '#e41a1c' - red) */
+    up_color?: string;
+    /** Color for down-regulated points (default: '#377eb8' - blue) */
+    down_color?: string;
+    /** Color for non-significant points (default: '#999999' - gray) */
+    ns_color?: string;
+    /** Show threshold lines (default: true) */
+    show_thresholds?: boolean;
+    /** Line type for thresholds (default: 'dashed') */
+    threshold_linetype?: 'solid' | 'dashed' | 'dotted';
+    /** Number of top significant points to label (default: 0, no labels) */
+    n_labels?: number;
+    /** Point size (default: 1) */
+    size?: number;
+    /** Point opacity (default: 0.6) */
+    alpha?: number;
+    /** Point character (default: '●') */
+    point_char?: string;
+    /** Show legend for significance groups (default: true) */
+    show_legend?: boolean;
+    /** Custom significance classification function */
+    classify?: (log2fc: number, pval: number) => 'up' | 'down' | 'ns';
+}
+/**
+ * Create a volcano plot for differential expression visualization
+ *
+ * Data should contain:
+ * - x column: log2 fold change values
+ * - y column: p-values (will be -log10 transformed) or -log10(p) if y_is_neglog10=true
+ * - label column (optional): gene names or identifiers for labeling top hits
+ *
+ * Points are automatically classified as:
+ * - Up-regulated: log2FC > fc_threshold AND p < p_threshold
+ * - Down-regulated: log2FC < -fc_threshold AND p < p_threshold
+ * - Not significant: everything else
+ */
+export declare function geom_volcano(options?: VolcanoOptions): Geom;
+//# sourceMappingURL=volcano.d.ts.map

package/dist/geoms/volcano.d.ts.map

@@ -0,0 +1 @@
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package/dist/index.d.ts

@@ -9,8 +9,8 @@ export type { AestheticMapping, Canvas, CanvasCell, ComputedPoint, Coord, DataRe
 export { TerminalCanvas, createCanvas, DEFAULT_FG, DEFAULT_BG } from './canvas';
 export { renderToCanvas, renderToString, calculateLayout, buildScaleContext, inferContinuousDomain, inferDiscreteDomain, } from './pipeline';
 export type { PlotLayout, ResolvedScale, ScaleContext } from './pipeline';
-export { geom_point, geom_line, geom_path, geom_hline, geom_vline, geom_bar, geom_col, geom_text, geom_label, geom_area, geom_ribbon, geom_histogram, geom_density, geom_boxplot, geom_segment, geom_curve, geom_smooth, geom_step, geom_rug, geom_violin, geom_tile, geom_raster, geom_bin2d, geom_contour, geom_contour_filled, geom_density_2d, geom_errorbar, geom_errorbarh, geom_crossbar, geom_linerange, geom_pointrange, geom_rect, geom_abline, geom_qq, geom_qq_line, geom_freqpoly, geom_ridgeline, geom_joy, geom_beeswarm, geom_quasirandom, geom_dumbbell, geom_lollipop, geom_waffle, geom_sparkline, geom_bullet, geom_braille, SPARK_BARS, SPARK_DOTS, BRAILLE_BASE, BRAILLE_DOTS, geom_calendar, geom_flame, geom_icicle, geom_corrmat, geom_sankey, geom_treemap, } from './geoms';
-export type { PathOptions, RugOptions, SmoothOptions, StepOptions, ViolinOptions, TileOptions, Bin2dOptions, ContourOptions, ErrorbarOptions, RectOptions, AblineOptions, QQOptions, QQLineOptions, FreqpolyOptions, DensityOptions, RidgelineOptions, BeeswarmOptions, DumbbellOptions, LollipopOptions, WaffleOptions, SparklineOptions, BulletOptions, BrailleOptions, CalendarOptions, FlameOptions, CorrmatOptions, SankeyOptions, TreemapOptions, } from './geoms';
+export { geom_point, geom_line, geom_path, geom_hline, geom_vline, geom_bar, geom_col, geom_text, geom_label, geom_area, geom_ribbon, geom_histogram, geom_density, geom_boxplot, geom_segment, geom_curve, geom_smooth, geom_step, geom_rug, geom_violin, geom_tile, geom_raster, geom_bin2d, geom_contour, geom_contour_filled, geom_density_2d, geom_errorbar, geom_errorbarh, geom_crossbar, geom_linerange, geom_pointrange, geom_rect, geom_abline, geom_qq, geom_qq_line, geom_freqpoly, geom_ridgeline, geom_joy, geom_beeswarm, geom_quasirandom, geom_dumbbell, geom_lollipop, geom_waffle, geom_sparkline, geom_bullet, geom_braille, SPARK_BARS, SPARK_DOTS, BRAILLE_BASE, BRAILLE_DOTS, geom_calendar, geom_flame, geom_icicle, geom_corrmat, geom_sankey, geom_treemap, geom_volcano, } from './geoms';
+export type { PathOptions, RugOptions, SmoothOptions, StepOptions, ViolinOptions, TileOptions, Bin2dOptions, ContourOptions, ErrorbarOptions, RectOptions, AblineOptions, QQOptions, QQLineOptions, FreqpolyOptions, DensityOptions, RidgelineOptions, BeeswarmOptions, DumbbellOptions, LollipopOptions, WaffleOptions, SparklineOptions, BulletOptions, BrailleOptions, CalendarOptions, FlameOptions, CorrmatOptions, SankeyOptions, TreemapOptions, VolcanoOptions, } from './geoms';
 export { position_identity, position_dodge, position_stack, position_fill, position_jitter, applyPositionAdjustment, isStackPosition, isDodgePosition, getPositionType, } from './positions';
 export type { Position, AdjustedPoint, DodgeOptions, JitterOptions, StackOptions, FillOptions, } from './positions';
 export { stat_bin, stat_bin2d, stat_boxplot, stat_density, stat_smooth, stat_summary, stat_qq, stat_qq_line, computeBins, computeBins2d, computeBoxplotStats, computeDensity, computeSmooth, computeSummary, computeQQ, computeQQLine, stat_beeswarm, computeBeeswarm, } from './stats';

package/dist/index.d.ts.map

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package/dist/index.js

@@ -3635,6 +3635,91 @@ function renderGeomTreemap(data, geom, aes, scales, canvas) {
     renderNode(validRoots[i], i, 0);
   }
 }
+function renderGeomVolcano(data, geom, aes, scales, canvas) {
+  const fcThreshold = geom.params.fc_threshold ?? 1;
+  const pThreshold = geom.params.p_threshold ?? 0.05;
+  const yIsNegLog10 = geom.params.y_is_neglog10 ?? false;
+  const upColor = parseColorToRgba(geom.params.up_color ?? "#e41a1c");
+  const downColor = parseColorToRgba(geom.params.down_color ?? "#377eb8");
+  const nsColor = parseColorToRgba(geom.params.ns_color ?? "#999999");
+  const showThresholds = geom.params.show_thresholds ?? true;
+  const nLabels = geom.params.n_labels ?? 0;
+  const pointChar = geom.params.point_char ?? "●";
+  const negLog10PThreshold = -Math.log10(pThreshold);
+  const points = [];
+  for (const row of data) {
+    const xVal = Number(row[aes.x]);
+    let yVal = Number(row[aes.y]);
+    if (isNaN(xVal) || isNaN(yVal) || yVal <= 0)
+      continue;
+    if (!yIsNegLog10) {
+      yVal = -Math.log10(yVal);
+    }
+    let status = "ns";
+    if (yVal >= negLog10PThreshold) {
+      if (xVal >= fcThreshold) {
+        status = "up";
+      } else if (xVal <= -fcThreshold) {
+        status = "down";
+      }
+    }
+    const label = aes.label ? String(row[aes.label] ?? "") : undefined;
+    points.push({
+      row,
+      x: xVal,
+      y: yVal,
+      significance: yVal,
+      status,
+      label
+    });
+  }
+  if (showThresholds) {
+    const thresholdColor = { r: 150, g: 150, b: 150, a: 0.7 };
+    const cy = Math.round(scales.y.map(negLog10PThreshold));
+    const startX = Math.round(scales.x.range[0]);
+    const endX = Math.round(scales.x.range[1]);
+    for (let x = startX;x <= endX; x += 2) {
+      canvas.drawChar(x, cy, "─", thresholdColor);
+    }
+    const cxPos = Math.round(scales.x.map(fcThreshold));
+    const cxNeg = Math.round(scales.x.map(-fcThreshold));
+    const startY = Math.round(Math.min(scales.y.range[0], scales.y.range[1]));
+    const endY = Math.round(Math.max(scales.y.range[0], scales.y.range[1]));
+    for (let y = startY;y <= endY; y += 2) {
+      canvas.drawChar(cxPos, y, "│", thresholdColor);
+      canvas.drawChar(cxNeg, y, "│", thresholdColor);
+    }
+  }
+  for (const point of points) {
+    if (point.status === "ns") {
+      const cx = Math.round(scales.x.map(point.x));
+      const cy = Math.round(scales.y.map(point.y));
+      canvas.drawPoint(cx, cy, nsColor, pointChar);
+    }
+  }
+  for (const point of points) {
+    if (point.status !== "ns") {
+      const cx = Math.round(scales.x.map(point.x));
+      const cy = Math.round(scales.y.map(point.y));
+      const color = point.status === "up" ? upColor : downColor;
+      canvas.drawPoint(cx, cy, color, pointChar);
+    }
+  }
+  if (nLabels > 0 && aes.label) {
+    const significantPoints = points.filter((p) => p.status !== "ns" && p.label).sort((a, b) => b.significance - a.significance).slice(0, nLabels);
+    const labelColor = { r: 50, g: 50, b: 50, a: 1 };
+    for (const point of significantPoints) {
+      const cx = Math.round(scales.x.map(point.x));
+      const cy = Math.round(scales.y.map(point.y));
+      const label = point.label;
+      const labelX = cx + 1;
+      const labelY = cy;
+      for (let i = 0;i < label.length; i++) {
+        canvas.drawChar(labelX + i, labelY, label[i], labelColor);
+      }
+    }
+  }
+}
 function renderGeom(data, geom, aes, scales, canvas, coordType) {
   switch (geom.type) {
     case "point":
@@ -3760,6 +3845,9 @@ function renderGeom(data, geom, aes, scales, canvas, coordType) {
     case "treemap":
       renderGeomTreemap(data, geom, aes, scales, canvas);
       break;
+    case "volcano":
+      renderGeomVolcano(data, geom, aes, scales, canvas);
+      break;
     default:
       break;
   }
@@ -7381,6 +7469,31 @@ function geom_treemap(options = {}) {
   };
 }
 
+// src/geoms/volcano.ts
+function geom_volcano(options = {}) {
+  return {
+    type: "volcano",
+    stat: "identity",
+    position: "identity",
+    params: {
+      fc_threshold: options.fc_threshold ?? 1,
+      p_threshold: options.p_threshold ?? 0.05,
+      y_is_neglog10: options.y_is_neglog10 ?? false,
+      up_color: options.up_color ?? "#e41a1c",
+      down_color: options.down_color ?? "#377eb8",
+      ns_color: options.ns_color ?? "#999999",
+      show_thresholds: options.show_thresholds ?? true,
+      threshold_linetype: options.threshold_linetype ?? "dashed",
+      n_labels: options.n_labels ?? 0,
+      size: options.size ?? 1,
+      alpha: options.alpha ?? 0.6,
+      point_char: options.point_char ?? "●",
+      show_legend: options.show_legend ?? true,
+      classify: options.classify
+    }
+  };
+}
+
 // src/geoms/index.ts
 var init_geoms = __esm(() => {
   init_ridgeline();
@@ -11889,6 +12002,7 @@ __export(exports_src, {
   getCapabilities: () => getCapabilities,
   getAvailablePalettes: () => getAvailablePalettes,
   geom_waffle: () => geom_waffle,
+  geom_volcano: () => geom_volcano,
   geom_vline: () => geom_vline,
   geom_violin: () => geom_violin,
   geom_treemap: () => geom_treemap,
@@ -12158,6 +12272,7 @@ export {
   getCapabilities,
   getAvailablePalettes,
   geom_waffle,
+  geom_volcano,
   geom_vline,
   geom_violin,
   geom_treemap,

package/dist/pipeline/render-geoms.d.ts

@@ -185,6 +185,10 @@ export declare function renderGeomSankey(data: DataSource, geom: Geom, aes: Aest
  * Render a treemap visualization
  */
 export declare function renderGeomTreemap(data: DataSource, geom: Geom, aes: AestheticMapping, scales: ScaleContext, canvas: TerminalCanvas): void;
+/**
+ * Render geom_volcano - Volcano plot for differential expression
+ */
+export declare function renderGeomVolcano(data: DataSource, geom: Geom, aes: AestheticMapping, scales: ScaleContext, canvas: TerminalCanvas): void;
 /**
  * Geometry renderer dispatch
  */

package/dist/pipeline/render-geoms.d.ts.map

@@ -1 +1 @@
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package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@ggterm/core",
-  "version": "0.2.16",
+  "version": "0.2.17",
   "description": "Grammar of Graphics engine for terminals",
   "type": "module",
   "main": "./dist/index.js",