@jbrowse/render-core 4.3.0

package/src/shaders/coverageMod.iface.generated.ts

@@ -0,0 +1,211 @@
+// AUTO-GENERATED by packages/shader-tools/src/shader-codegen from coverageMod.slang.
+// Do not edit. Run `pnpm gen:shaders` to regenerate.
+
+import type { VertexAttributeLayout, ShaderBinding } from '@jbrowse/render-core/hal'
+
+export const BINDINGS: readonly ShaderBinding[] = [
+  { index: 1, kind: 'uniform', name: 'u' },
+]
+
+export const VERTS_PER_INSTANCE = 6
+
+export const UNIFORMS_SIZE_BYTES = 112
+
+// Word indices into a Float32Array view over the uniform buffer.
+export const UNIFORM_OFFSET_F32 = {
+  bpHi: 0,
+  bpLo: 1,
+  bpLen: 2,
+  hpZero: 3,
+  canvasW: 4,
+  canvasH: 5,
+  covHeight: 6,
+  covYOffset: 7,
+  covTop: 8,
+  regionMaxDepth: 9,
+  depthDomainMax: 10,
+  depthDomainMin: 11,
+  coverageSymlogConstant: 12,
+  binSize: 13,
+  interbaseHeight: 14,
+  snpMinFreq: 15,
+  reversed: 16,
+} as const
+
+// Word indices into a Uint32Array view over the uniform buffer.
+export const UNIFORM_OFFSET_U32 = {
+  colorCoverage: 18,
+  colorBaseA: 19,
+  colorBaseC: 20,
+  colorBaseG: 21,
+  colorBaseT: 22,
+  colorBaseN: 23,
+  colorInsertionIndicator: 24,
+  colorSoftclipIndicator: 25,
+  colorHardclipIndicator: 26,
+} as const
+
+// Word indices into a Int32Array view over the uniform buffer.
+export const UNIFORM_OFFSET_I32 = {
+  coverageScaleType: 17,
+} as const
+
+
+export interface Uniforms {
+  bpHi: number
+  bpLo: number
+  bpLen: number
+  hpZero: number
+  canvasW: number
+  canvasH: number
+  covHeight: number
+  covYOffset: number
+  covTop: number
+  regionMaxDepth: number
+  depthDomainMax: number
+  depthDomainMin: number
+  coverageSymlogConstant: number
+  binSize: number
+  interbaseHeight: number
+  snpMinFreq: number
+  reversed: number
+  coverageScaleType: number
+  colorCoverage: number
+  colorBaseA: number
+  colorBaseC: number
+  colorBaseG: number
+  colorBaseT: number
+  colorBaseN: number
+  colorInsertionIndicator: number
+  colorSoftclipIndicator: number
+  colorHardclipIndicator: number
+}
+
+export function writeUniforms(buf: ArrayBuffer, uniforms: Uniforms) {
+  const f32 = new Float32Array(buf)
+  const u32 = new Uint32Array(buf)
+  const i32 = new Int32Array(buf)
+  f32[0] = uniforms.bpHi
+  f32[1] = uniforms.bpLo
+  f32[2] = uniforms.bpLen
+  f32[3] = uniforms.hpZero
+  f32[4] = uniforms.canvasW
+  f32[5] = uniforms.canvasH
+  f32[6] = uniforms.covHeight
+  f32[7] = uniforms.covYOffset
+  f32[8] = uniforms.covTop
+  f32[9] = uniforms.regionMaxDepth
+  f32[10] = uniforms.depthDomainMax
+  f32[11] = uniforms.depthDomainMin
+  f32[12] = uniforms.coverageSymlogConstant
+  f32[13] = uniforms.binSize
+  f32[14] = uniforms.interbaseHeight
+  f32[15] = uniforms.snpMinFreq
+  f32[16] = uniforms.reversed
+  i32[17] = uniforms.coverageScaleType
+  u32[18] = uniforms.colorCoverage
+  u32[19] = uniforms.colorBaseA
+  u32[20] = uniforms.colorBaseC
+  u32[21] = uniforms.colorBaseG
+  u32[22] = uniforms.colorBaseT
+  u32[23] = uniforms.colorBaseN
+  u32[24] = uniforms.colorInsertionIndicator
+  u32[25] = uniforms.colorSoftclipIndicator
+  u32[26] = uniforms.colorHardclipIndicator
+}
+
+export const INSTANCE_STRIDE_BYTES = 20
+export const INSTANCE_STRIDE_WORDS = 5
+
+// Word indices into a Float32Array view over the instance buffer.
+export const INSTANCE_OFFSET_F32 = {
+  yOffset: 1,
+  segHeight: 2,
+  relDepth: 4,
+} as const
+
+// Word indices into a Uint32Array view over the instance buffer.
+export const INSTANCE_OFFSET_U32 = {
+  position: 0,
+  packedColor: 3,
+} as const
+
+export const VERTEX_ATTRIBUTES: readonly VertexAttributeLayout[] = [
+  { name: 'a_position', components: 1, type: 'uint', offsetBytes: 0, integer: true },
+  { name: 'a_yOffset', components: 1, type: 'float', offsetBytes: 4, integer: false },
+  { name: 'a_segHeight', components: 1, type: 'float', offsetBytes: 8, integer: false },
+  { name: 'a_packedColor', components: 1, type: 'uint', offsetBytes: 12, integer: true },
+  { name: 'a_relDepth', components: 1, type: 'float', offsetBytes: 16, integer: false },
+]
+
+export interface InstanceArrays {
+  position: ArrayLike<number>
+  yOffset: ArrayLike<number>
+  segHeight: ArrayLike<number>
+  packedColor: ArrayLike<number>
+  relDepth: ArrayLike<number>
+}
+
+export function packInstances(
+  arrays: InstanceArrays,
+  numInstances: number,
+  buf: ArrayBuffer = new ArrayBuffer(numInstances * INSTANCE_STRIDE_BYTES),
+) {
+  const f32 = new Float32Array(buf)
+  const u32 = new Uint32Array(buf)
+  const { position, yOffset, segHeight, packedColor, relDepth } = arrays
+  for (let i = 0; i < numInstances; i++) {
+    const o = i * INSTANCE_STRIDE_WORDS
+    u32[o + 0] = position[i]!
+    f32[o + 1] = yOffset[i]!
+    f32[o + 2] = segHeight[i]!
+    u32[o + 3] = packedColor[i]!
+    f32[o + 4] = relDepth[i]!
+  }
+  return buf
+}
+
+// Instance `i`'s `position`.
+export function getInstancePosition(u32: Uint32Array, i: number) {
+  return u32[i * INSTANCE_STRIDE_WORDS]!
+}
+
+export function setInstancePosition(u32: Uint32Array, i: number, v: number) {
+  u32[i * INSTANCE_STRIDE_WORDS] = v
+}
+
+// Instance `i`'s `yOffset`.
+export function getInstanceYOffset(f32: Float32Array, i: number) {
+  return f32[i * INSTANCE_STRIDE_WORDS + 1]!
+}
+
+export function setInstanceYOffset(f32: Float32Array, i: number, v: number) {
+  f32[i * INSTANCE_STRIDE_WORDS + 1] = v
+}
+
+// Instance `i`'s `segHeight`.
+export function getInstanceSegHeight(f32: Float32Array, i: number) {
+  return f32[i * INSTANCE_STRIDE_WORDS + 2]!
+}
+
+export function setInstanceSegHeight(f32: Float32Array, i: number, v: number) {
+  f32[i * INSTANCE_STRIDE_WORDS + 2] = v
+}
+
+// Instance `i`'s `packedColor`.
+export function getInstancePackedColor(u32: Uint32Array, i: number) {
+  return u32[i * INSTANCE_STRIDE_WORDS + 3]!
+}
+
+export function setInstancePackedColor(u32: Uint32Array, i: number, v: number) {
+  u32[i * INSTANCE_STRIDE_WORDS + 3] = v
+}
+
+// Instance `i`'s `relDepth`.
+export function getInstanceRelDepth(f32: Float32Array, i: number) {
+  return f32[i * INSTANCE_STRIDE_WORDS + 4]!
+}
+
+export function setInstanceRelDepth(f32: Float32Array, i: number, v: number) {
+  f32[i * INSTANCE_STRIDE_WORDS + 4] = v
+}

package/src/shaders/coverageMod.slang

@@ -0,0 +1,36 @@
+// Base-modification segments stacked on the coverage bars. Carries a
+// per-instance packed ABGR color because modifications have many possible types
+// + strengths that don't fit in palette slots — otherwise identical to
+// coverageSnp.slang. See coverageBand.slang.
+//! targets: wgsl, glsl
+//! layout-out: packages/alignments-core/src/modCoverageLayout.generated.ts
+
+import coverageBand;
+import colorPack;
+import hpmath;
+
+public static const uint VERTS_PER_INSTANCE = 6u;
+[[vk::binding(1, 0)]] ConstantBuffer<CoverageBandUniforms> u;
+
+// See coverageSnp.slang for the per-position fraction contract.
+struct Instance {
+  uint  position    : ATTR0;
+  float yOffset     : ATTR1;
+  float segHeight   : ATTR2;
+  uint  packedColor : ATTR3;
+  float relDepth    : ATTR4;
+};
+
+[shader("vertex")]
+CoverageVsOut vs_main(Instance inst, uint vid : SV_VertexID) {
+  CoverageVsOut o;
+  o.position = covSegQuad(inst.position, 1u, inst.yOffset, inst.segHeight,
+                          inst.relDepth, quadLocal(vid), u);
+  o.color = unpackRGBA(inst.packedColor);
+  return o;
+}
+
+[shader("fragment")]
+float4 fs_main(CoverageVsOut fragIn) : SV_Target {
+  return fragIn.color;
+}

package/src/shaders/coverageSnp.generated.ts

@@ -0,0 +1,10 @@
+// AUTO-GENERATED by packages/shader-tools/src/shader-codegen from coverageSnp.slang.
+// Do not edit. Run `pnpm gen:shaders` to regenerate.
+
+export const WGSL_SOURCE = "struct CoverageBandUniforms_std140_0\n{\n    @align(16) bpHi_0 : f32,\n    @align(4) bpLo_0 : f32,\n    @align(8) bpLen_0 : f32,\n    @align(4) hpZero_0 : f32,\n    @align(16) canvasW_0 : f32,\n    @align(4) canvasH_0 : f32,\n    @align(8) covHeight_0 : f32,\n    @align(4) covYOffset_0 : f32,\n    @align(16) covTop_0 : f32,\n    @align(4) regionMaxDepth_0 : f32,\n    @align(8) depthDomainMax_0 : f32,\n    @align(4) depthDomainMin_0 : f32,\n    @align(16) coverageSymlogConstant_0 : f32,\n    @align(4) binSize_0 : f32,\n    @align(8) interbaseHeight_0 : f32,\n    @align(4) snpMinFreq_0 : f32,\n    @align(16) reversed_0 : f32,\n    @align(4) coverageScaleType_0 : i32,\n    @align(8) colorCoverage_0 : u32,\n    @align(4) colorBaseA_0 : u32,\n    @align(16) colorBaseC_0 : u32,\n    @align(4) colorBaseG_0 : u32,\n    @align(8) colorBaseT_0 : u32,\n    @align(4) colorBaseN_0 : u32,\n    @align(16) colorInsertionIndicator_0 : u32,\n    @align(4) colorSoftclipIndicator_0 : u32,\n    @align(8) colorHardclipIndicator_0 : u32,\n};\n\n@binding(1) @group(0) var<uniform> u_0 : CoverageBandUniforms_std140_0;\nstruct CoverageVsOut_0\n{\n    @builtin(position) position_0 : vec4<f32>,\n    @location(0) color_0 : vec4<f32>,\n};\n\nfn covDiscardVertex_0() -> CoverageVsOut_0\n{\n    var o_0 : CoverageVsOut_0;\n    var _S1 : vec4<f32> = vec4<f32>(0.0f);\n    o_0.position_0 = _S1;\n    o_0.color_0 = _S1;\n    return o_0;\n}\n\nfn quadLocal_0( vid_0 : u32) -> vec2<f32>\n{\n    var v_0 : u32 = vid_0 % u32(6);\n    var _S2 : bool = v_0 == u32(0);\n    var _S3 : bool;\n    if(_S2)\n    {\n        _S3 = true;\n    }\n    else\n    {\n        _S3 = v_0 == u32(2);\n    }\n    if(_S3)\n    {\n        _S3 = true;\n    }\n    else\n    {\n        _S3 = v_0 == u32(3);\n    }\n    var _S4 : f32;\n    if(_S3)\n    {\n        _S4 = 0.0f;\n    }\n    else\n    {\n        _S4 = 1.0f;\n    }\n    if(_S2)\n    {\n        _S3 = true;\n    }\n    else\n    {\n        _S3 = v_0 == u32(1);\n    }\n    if(_S3)\n    {\n        _S3 = true;\n    }\n    else\n    {\n        _S3 = v_0 == u32(4);\n    }\n    var _S5 : f32;\n    if(_S3)\n    {\n        _S5 = 0.0f;\n    }\n    else\n    {\n        _S5 = 1.0f;\n    }\n    return vec2<f32>(_S4, _S5);\n}\n\nfn hpSplitUint_0( value_0 : u32) -> vec2<f32>\n{\n    var lo_0 : u32 = (value_0 & (u32(4095)));\n    return vec2<f32>(f32(value_0 - lo_0), f32(lo_0));\n}\n\nfn hpToClipX_0( splitPos_0 : vec2<f32>,  bpRange_0 : vec3<f32>,  hpZero_1 : f32) -> f32\n{\n    var step_0 : f32 = 2.0f / bpRange_0.z;\n    var _S6 : f32 = - (1.0f / hpZero_1);\n    return dot(vec3<f32>(-1.0f, max(splitPos_0.x - bpRange_0.x, _S6), max(splitPos_0.y - bpRange_0.y, _S6)), vec3<f32>(1.0f, step_0, step_0));\n}\n\nfn covBpToClipX_0( bp_0 : u32,  u_1 : ptr<function, CoverageBandUniforms_std140_0>) -> f32\n{\n    return hpToClipX_0(hpSplitUint_0(bp_0), vec3<f32>((*u_1).bpHi_0, (*u_1).bpLo_0, (*u_1).bpLen_0), (*u_1).hpZero_0);\n}\n\nfn expandToMinWidthPx_0( x1_0 : f32,  x2_0 : f32,  minWidth_0 : f32) -> vec2<f32>\n{\n    if((x2_0 - x1_0) < minWidth_0)\n    {\n        var mid_0 : f32 = (x1_0 + x2_0) * 0.5f;\n        var _S7 : f32 = minWidth_0 * 0.5f;\n        return vec2<f32>(mid_0 - _S7, mid_0 + _S7);\n    }\n    return vec2<f32>(x1_0, x2_0);\n}\n\nfn expandToMinWidthX_0( x1_1 : f32,  x2_1 : f32,  minWidthPx_0 : f32,  canvasWidth_0 : f32) -> vec2<f32>\n{\n    return expandToMinWidthPx_0(x1_1, x2_1, minWidthPx_0 * 2.0f / canvasWidth_0);\n}\n\nfn covExpandMinWidthX_0( x1_2 : f32,  x2_2 : f32,  canvasWidth_1 : f32) -> vec2<f32>\n{\n    return expandToMinWidthX_0(x1_2, x2_2, 1.0f, canvasWidth_1);\n}\n\nfn yPxToClipY_0( yPx_0 : f32,  canvasHeight_0 : f32) -> f32\n{\n    return 1.0f - yPx_0 / canvasHeight_0 * 2.0f;\n}\n\nfn covAreaTop_0( u_2 : ptr<function, CoverageBandUniforms_std140_0>) -> f32\n{\n    return yPxToClipY_0((*u_2).covTop_0, (*u_2).canvasH_0);\n}\n\nfn covBottomOffsetPx_0( covHeight_1 : f32,  covYOffset_1 : f32) -> f32\n{\n    return covHeight_1 - covYOffset_1;\n}\n\nfn covBottom_0( u_3 : ptr<function, CoverageBandUniforms_std140_0>) -> f32\n{\n    var _S8 : f32 = covAreaTop_0(&((*u_3)));\n    return _S8 - covBottomOffsetPx_0((*u_3).covHeight_0, (*u_3).covYOffset_0) / (*u_3).canvasH_0 * 2.0f;\n}\n\nfn symlogTransform_0( x_0 : f32,  c_0 : f32) -> f32\n{\n    return f32((i32(sign((x_0))))) * log(1.0f + abs(x_0 / c_0));\n}\n\nfn normalizeScore_0( score_0 : f32,  domainMin_0 : f32,  domainMax_0 : f32,  scaleType_0 : i32,  symlogConstant_0 : f32) -> f32\n{\n    if(scaleType_0 == i32(2))\n    {\n        var tMin_0 : f32 = symlogTransform_0(domainMin_0, symlogConstant_0);\n        var tRange_0 : f32 = symlogTransform_0(domainMax_0, symlogConstant_0) - tMin_0;\n        if(tRange_0 <= 0.0f)\n        {\n            return 0.0f;\n        }\n        return clamp((symlogTransform_0(score_0, symlogConstant_0) - tMin_0) / tRange_0, 0.0f, 1.0f);\n    }\n    if(scaleType_0 == i32(1))\n    {\n        var floorV_0 : f32;\n        if(domainMin_0 > 0.0f)\n        {\n            floorV_0 = domainMin_0;\n        }\n        else\n        {\n            floorV_0 = 1.0f;\n        }\n        var logMin_0 : f32 = log2(floorV_0);\n        var logRange_0 : f32 = log2(max(domainMax_0, floorV_0)) - logMin_0;\n        if(logRange_0 <= 0.0f)\n        {\n            return 0.0f;\n        }\n        return clamp((log2(max(score_0, floorV_0)) - logMin_0) / logRange_0, 0.0f, 1.0f);\n    }\n    var range_0 : f32 = domainMax_0 - domainMin_0;\n    if(range_0 <= 0.0f)\n    {\n        return 0.0f;\n    }\n    return clamp((score_0 - domainMin_0) / range_0, 0.0f, 1.0f);\n}\n\nfn normalizeDepthScalar_0( rawDepth_0 : f32,  domainMin_1 : f32,  domainMax_1 : f32,  scaleType_1 : i32,  symlogConstant_1 : f32) -> f32\n{\n    return normalizeScore_0(rawDepth_0, domainMin_1, domainMax_1, scaleType_1, symlogConstant_1);\n}\n\nfn covNormalizeDepth_0( relDepth_0 : f32,  u_4 : ptr<function, CoverageBandUniforms_std140_0>) -> f32\n{\n    return normalizeDepthScalar_0(relDepth_0 * (*u_4).regionMaxDepth_0, (*u_4).depthDomainMin_0, (*u_4).depthDomainMax_0, (*u_4).coverageScaleType_0, (*u_4).coverageSymlogConstant_0);\n}\n\nfn covEffectiveHeightPx_0( covHeight_2 : f32,  covYOffset_2 : f32) -> f32\n{\n    return max(covHeight_2 - 2.0f * covYOffset_2, 0.0f);\n}\n\nfn covEffHeight_0( u_5 : ptr<function, CoverageBandUniforms_std140_0>) -> f32\n{\n    return covEffectiveHeightPx_0((*u_5).covHeight_0, (*u_5).covYOffset_0);\n}\n\nfn covBarScale_0( relDepth_1 : f32,  u_6 : ptr<function, CoverageBandUniforms_std140_0>) -> f32\n{\n    var _S9 : f32 = covNormalizeDepth_0(relDepth_1, &((*u_6)));\n    var _S10 : f32 = covEffHeight_0(&((*u_6)));\n    return _S9 * _S10 / (*u_6).canvasH_0 * 2.0f;\n}\n\nfn covFlipX_0( x_1 : f32,  u_7 : ptr<function, CoverageBandUniforms_std140_0>) -> f32\n{\n    return mix(x_1, - x_1, (*u_7).reversed_0);\n}\n\nfn covFlippedQuad_0( x0_0 : f32,  x1_3 : f32,  yBot_0 : f32,  yTop_0 : f32,  local_0 : vec2<f32>,  u_8 : ptr<function, CoverageBandUniforms_std140_0>) -> vec4<f32>\n{\n    var _S11 : f32 = covFlipX_0(mix(x0_0, x1_3, local_0.x), &((*u_8)));\n    return vec4<f32>(_S11, mix(yBot_0, yTop_0, local_0.y), 0.0f, 1.0f);\n}\n\nfn covSegQuad_0( position_1 : u32,  widthBp_0 : u32,  yOffset_0 : f32,  segHeight_0 : f32,  relDepth_2 : f32,  local_1 : vec2<f32>,  u_9 : ptr<function, CoverageBandUniforms_std140_0>) -> vec4<f32>\n{\n    var _S12 : f32 = covBpToClipX_0(position_1, &((*u_9)));\n    var _S13 : f32 = covBpToClipX_0(position_1 + widthBp_0, &((*u_9)));\n    var xx_0 : vec2<f32> = covExpandMinWidthX_0(_S12, _S13, (*u_9).canvasW_0);\n    var _S14 : f32 = covBottom_0(&((*u_9)));\n    var _S15 : f32 = covBarScale_0(relDepth_2, &((*u_9)));\n    var segBot_0 : f32 = _S14 + yOffset_0 * _S15;\n    var _S16 : vec4<f32> = covFlippedQuad_0(xx_0.x, xx_0.y, segBot_0, segBot_0 + segHeight_0 * _S15, local_1, &((*u_9)));\n    return _S16;\n}\n\nfn unpackRGBA_0( c_1 : u32) -> vec4<f32>\n{\n    return vec4<f32>(f32((((c_1 >> (u32(0)))) & (u32(255)))), f32((((c_1 >> (u32(8)))) & (u32(255)))), f32((((c_1 >> (u32(16)))) & (u32(255)))), f32((((c_1 >> (u32(24)))) & (u32(255))))) / vec4<f32>(255.0f);\n}\n\nfn covSnpColor_0( ct_0 : f32,  u_10 : ptr<function, CoverageBandUniforms_std140_0>) -> vec3<f32>\n{\n    switch(i32(ct_0))\n    {\n    case i32(1):\n        {\n            return unpackRGBA_0((*u_10).colorBaseA_0).xyz;\n        }\n    case i32(2):\n        {\n            return unpackRGBA_0((*u_10).colorBaseC_0).xyz;\n        }\n    case i32(3):\n        {\n            return unpackRGBA_0((*u_10).colorBaseG_0).xyz;\n        }\n    case i32(4):\n        {\n            return unpackRGBA_0((*u_10).colorBaseT_0).xyz;\n        }\n    default :\n        {\n            return unpackRGBA_0((*u_10).colorBaseN_0).xyz;\n        }\n    }\n}\n\nstruct vertexInput_0\n{\n    @location(0) position_2 : u32,\n    @location(1) yOffset_1 : f32,\n    @location(2) segHeight_1 : f32,\n    @location(3) colorType_0 : f32,\n    @location(4) relDepth_3 : f32,\n};\n\n@vertex\nfn vs_main( _S17 : vertexInput_0, @builtin(vertex_index) vid_1 : u32) -> CoverageVsOut_0\n{\n    if((_S17.segHeight_1) < (u_0.snpMinFreq_0))\n    {\n        return covDiscardVertex_0();\n    }\n    var o_1 : CoverageVsOut_0;\n    var _S18 : vec2<f32> = quadLocal_0(vid_1);\n    var _S19 : CoverageBandUniforms_std140_0 = u_0;\n    var _S20 : vec4<f32> = covSegQuad_0(_S17.position_2, u32(1), _S17.yOffset_1, _S17.segHeight_1, _S17.relDepth_3, _S18, &(_S19));\n    o_1.position_0 = _S20;\n    var _S21 : vec3<f32> = covSnpColor_0(_S17.colorType_0, &(_S19));\n    o_1.color_0 = vec4<f32>(_S21, 1.0f);\n    return o_1;\n}\n\nstruct pixelOutput_0\n{\n    @location(0) output_0 : vec4<f32>,\n};\n\nstruct pixelInput_0\n{\n    @location(0) color_1 : vec4<f32>,\n};\n\n@fragment\nfn fs_main( _S22 : pixelInput_0, @builtin(position) position_3 : vec4<f32>) -> pixelOutput_0\n{\n    var _S23 : pixelOutput_0 = pixelOutput_0( _S22.color_1 );\n    return _S23;\n}\n\n"
+
+export const GLSL_VERTEX = "#version 300 es\nprecision highp float;\nprecision highp int;\nstruct CoverageBandUniforms_0\n{\n    float bpHi_0;\n    float bpLo_0;\n    float bpLen_0;\n    float hpZero_0;\n    float canvasW_0;\n    float canvasH_0;\n    float covHeight_0;\n    float covYOffset_0;\n    float covTop_0;\n    float regionMaxDepth_0;\n    float depthDomainMax_0;\n    float depthDomainMin_0;\n    float coverageSymlogConstant_0;\n    float binSize_0;\n    float interbaseHeight_0;\n    float snpMinFreq_0;\n    float reversed_0;\n    int coverageScaleType_0;\n    uint colorCoverage_0;\n    uint colorBaseA_0;\n    uint colorBaseC_0;\n    uint colorBaseG_0;\n    uint colorBaseT_0;\n    uint colorBaseN_0;\n    uint colorInsertionIndicator_0;\n    uint colorSoftclipIndicator_0;\n    uint colorHardclipIndicator_0;\n};\n\n\nlayout(std140) uniform Uniforms\n{\n    float bpHi_0;\n    float bpLo_0;\n    float bpLen_0;\n    float hpZero_0;\n    float canvasW_0;\n    float canvasH_0;\n    float covHeight_0;\n    float covYOffset_0;\n    float covTop_0;\n    float regionMaxDepth_0;\n    float depthDomainMax_0;\n    float depthDomainMin_0;\n    float coverageSymlogConstant_0;\n    float binSize_0;\n    float interbaseHeight_0;\n    float snpMinFreq_0;\n    float reversed_0;\n    int coverageScaleType_0;\n    uint colorCoverage_0;\n    uint colorBaseA_0;\n    uint colorBaseC_0;\n    uint colorBaseG_0;\n    uint colorBaseT_0;\n    uint colorBaseN_0;\n    uint colorInsertionIndicator_0;\n    uint colorSoftclipIndicator_0;\n    uint colorHardclipIndicator_0;\n}u_0;\n\nstruct CoverageVsOut_0\n{\n    vec4 position_0;\n    vec4 color_0;\n};\n\n\n\nCoverageVsOut_0 covDiscardVertex_0()\n{\n\n    CoverageVsOut_0 o_0;\n    const vec4 _S1 = vec4(0.0);\n\n    o_0.position_0 = _S1;\n    o_0.color_0 = _S1;\n    return o_0;\n}\n\n\nvec2 quadLocal_0(uint vid_0)\n{\n\n    uint v_0 = vid_0 % 6U;\n\n    bool _S2 = v_0 == 0U;\n\n    bool _S3;\n\n    if(_S2)\n    {\n\n        _S3 = true;\n\n    }\n    else\n    {\n\n        _S3 = v_0 == 2U;\n\n    }\n\n    if(_S3)\n    {\n\n        _S3 = true;\n\n    }\n    else\n    {\n\n        _S3 = v_0 == 3U;\n\n    }\n\n    float _S4;\n\n    if(_S3)\n    {\n\n        _S4 = 0.0;\n\n    }\n    else\n    {\n\n        _S4 = 1.0;\n\n    }\n    if(_S2)\n    {\n\n        _S3 = true;\n\n    }\n    else\n    {\n\n        _S3 = v_0 == 1U;\n\n    }\n\n    if(_S3)\n    {\n\n        _S3 = true;\n\n    }\n    else\n    {\n\n        _S3 = v_0 == 4U;\n\n    }\n\n    float _S5;\n\n    if(_S3)\n    {\n\n        _S5 = 0.0;\n\n    }\n    else\n    {\n\n        _S5 = 1.0;\n\n    }\n\n    return vec2(_S4, _S5);\n}\n\n\nvec2 hpSplitUint_0(uint value_0)\n{\n\n    uint lo_0 = value_0 & 4095U;\n\n    return vec2(float(value_0 - lo_0), float(lo_0));\n}\n\n\nfloat hpToClipX_0(vec2 splitPos_0, vec3 bpRange_0, float hpZero_1)\n{\n    float step_0 = 2.0 / bpRange_0.z;\n    float _S6 = - (1.0 / hpZero_1);\n\n    return dot(vec3(-1.0, max(splitPos_0.x - bpRange_0.x, _S6), max(splitPos_0.y - bpRange_0.y, _S6)), vec3(1.0, step_0, step_0));\n}\n\n\nfloat covBpToClipX_0(uint bp_0, CoverageBandUniforms_0 u_1)\n{\n\n    return hpToClipX_0(hpSplitUint_0(bp_0), vec3(u_1.bpHi_0, u_1.bpLo_0, u_1.bpLen_0), u_1.hpZero_0);\n}\n\n\nvec2 expandToMinWidthPx_0(float x1_0, float x2_0, float minWidth_0)\n{\n\n    if((x2_0 - x1_0) < minWidth_0)\n    {\n\n        float mid_0 = (x1_0 + x2_0) * 0.5;\n        float _S7 = minWidth_0 * 0.5;\n\n        return vec2(mid_0 - _S7, mid_0 + _S7);\n    }\n    return vec2(x1_0, x2_0);\n}\n\nvec2 expandToMinWidthX_0(float x1_1, float x2_1, float minWidthPx_0, float canvasWidth_0)\n{\n\n    return expandToMinWidthPx_0(x1_1, x2_1, minWidthPx_0 * 2.0 / canvasWidth_0);\n}\n\n\nvec2 covExpandMinWidthX_0(float x1_2, float x2_2, float canvasWidth_1)\n{\n\n    return expandToMinWidthX_0(x1_2, x2_2, 1.0, canvasWidth_1);\n}\n\n\nfloat yPxToClipY_0(float yPx_0, float canvasHeight_0)\n{\n\n    return 1.0 - yPx_0 / canvasHeight_0 * 2.0;\n}\n\n\nfloat covAreaTop_0(CoverageBandUniforms_0 u_2)\n{\n\n    return yPxToClipY_0(u_2.covTop_0, u_2.canvasH_0);\n}\n\n\nfloat covBottomOffsetPx_0(float covHeight_1, float covYOffset_1)\n{\n\n    return covHeight_1 - covYOffset_1;\n}\n\n\nfloat covBottom_0(CoverageBandUniforms_0 u_3)\n{\n\n    return covAreaTop_0(u_3) - covBottomOffsetPx_0(u_3.covHeight_0, u_3.covYOffset_0) / u_3.canvasH_0 * 2.0;\n}\n\n\nfloat symlogTransform_0(float x_0, float c_0)\n{\n\n    return float((int(sign((x_0))))) * log(1.0 + abs(x_0 / c_0));\n}\n\nfloat normalizeScore_0(float score_0, float domainMin_0, float domainMax_0, int scaleType_0, float symlogConstant_0)\n{\n\n    if(scaleType_0 == 2)\n    {\n\n        float tMin_0 = symlogTransform_0(domainMin_0, symlogConstant_0);\n\n        float tRange_0 = symlogTransform_0(domainMax_0, symlogConstant_0) - tMin_0;\n        if(tRange_0 <= 0.0)\n        {\n\n            return 0.0;\n        }\n        return clamp((symlogTransform_0(score_0, symlogConstant_0) - tMin_0) / tRange_0, 0.0, 1.0);\n    }\n    if(scaleType_0 == 1)\n    {\n\n        float floorV_0;\n\n        if(domainMin_0 > 0.0)\n        {\n\n            floorV_0 = domainMin_0;\n\n        }\n        else\n        {\n\n            floorV_0 = 1.0;\n\n        }\n        float logMin_0 = log2(floorV_0);\n\n        float logRange_0 = log2(max(domainMax_0, floorV_0)) - logMin_0;\n        if(logRange_0 <= 0.0)\n        {\n\n            return 0.0;\n        }\n        return clamp((log2(max(score_0, floorV_0)) - logMin_0) / logRange_0, 0.0, 1.0);\n    }\n    float range_0 = domainMax_0 - domainMin_0;\n    if(range_0 <= 0.0)\n    {\n\n        return 0.0;\n    }\n\n    return clamp((score_0 - domainMin_0) / range_0, 0.0, 1.0);\n}\n\n\nfloat normalizeDepthScalar_0(float rawDepth_0, float domainMin_1, float domainMax_1, int scaleType_1, float symlogConstant_1)\n{\n\n    return normalizeScore_0(rawDepth_0, domainMin_1, domainMax_1, scaleType_1, symlogConstant_1);\n}\n\n\nfloat covNormalizeDepth_0(float relDepth_0, CoverageBandUniforms_0 u_4)\n{\n    return normalizeDepthScalar_0(relDepth_0 * u_4.regionMaxDepth_0, u_4.depthDomainMin_0, u_4.depthDomainMax_0, u_4.coverageScaleType_0, u_4.coverageSymlogConstant_0);\n}\n\n\nfloat covEffectiveHeightPx_0(float covHeight_2, float covYOffset_2)\n{\n\n    return max(covHeight_2 - 2.0 * covYOffset_2, 0.0);\n}\n\n\nfloat covEffHeight_0(CoverageBandUniforms_0 u_5)\n{\n\n    return covEffectiveHeightPx_0(u_5.covHeight_0, u_5.covYOffset_0);\n}\n\n\nfloat covBarScale_0(float relDepth_1, CoverageBandUniforms_0 u_6)\n{\n\n    return covNormalizeDepth_0(relDepth_1, u_6) * covEffHeight_0(u_6) / u_6.canvasH_0 * 2.0;\n}\n\n\nfloat covFlipX_0(float x_1, CoverageBandUniforms_0 u_7)\n{\n\n    return mix(x_1, - x_1, u_7.reversed_0);\n}\n\n\nvec4 covFlippedQuad_0(float x0_0, float x1_3, float yBot_0, float yTop_0, vec2 local_0, CoverageBandUniforms_0 u_8)\n{\n    return vec4(covFlipX_0(mix(x0_0, x1_3, local_0.x), u_8), mix(yBot_0, yTop_0, local_0.y), 0.0, 1.0);\n}\n\n\nvec4 covSegQuad_0(uint position_1, uint widthBp_0, float yOffset_0, float segHeight_0, float relDepth_2, vec2 local_1, CoverageBandUniforms_0 u_9)\n{\n\n    vec2 xx_0 = covExpandMinWidthX_0(covBpToClipX_0(position_1, u_9), covBpToClipX_0(position_1 + widthBp_0, u_9), u_9.canvasW_0);\n\n\n    float k_0 = covBarScale_0(relDepth_2, u_9);\n    float segBot_0 = covBottom_0(u_9) + yOffset_0 * k_0;\n\n    return covFlippedQuad_0(xx_0.x, xx_0.y, segBot_0, segBot_0 + segHeight_0 * k_0, local_1, u_9);\n}\n\n\nvec4 unpackRGBA_0(uint c_1)\n{\n\n    return vec4(float((c_1 >> 0U) & 255U), float((c_1 >> 8U) & 255U), float((c_1 >> 16U) & 255U), float((c_1 >> 24U) & 255U)) / 255.0;\n}\n\n\nvec3 covSnpColor_0(float ct_0, CoverageBandUniforms_0 u_10)\n{\n\n    switch(int(ct_0))\n    {\n    case 1:\n        {\n\n            return unpackRGBA_0(u_10.colorBaseA_0).xyz;\n        }\n    case 2:\n        {\n\n            return unpackRGBA_0(u_10.colorBaseC_0).xyz;\n        }\n    case 3:\n        {\n\n            return unpackRGBA_0(u_10.colorBaseG_0).xyz;\n        }\n    case 4:\n        {\n\n            return unpackRGBA_0(u_10.colorBaseT_0).xyz;\n        }\n    default:\n        {\n\n            return unpackRGBA_0(u_10.colorBaseN_0).xyz;\n        }\n    }\n\n}\n\n\nout vec4 v_color;\n\n\nlayout(location = 0)\nin uint a_position;\n\n\nlayout(location = 1)\nin float a_yOffset;\n\n\nlayout(location = 2)\nin float a_segHeight;\n\n\nlayout(location = 3)\nin float a_colorType;\n\n\nlayout(location = 4)\nin float a_relDepth;\n\n\nvoid main()\n{\n\n    if(a_segHeight < (u_0.snpMinFreq_0))\n    {\n\n        CoverageVsOut_0 _S8 = covDiscardVertex_0();\n\n        gl_Position = _S8.position_0;\n\n        v_color = _S8.color_0;\n\n        return;\n    }\n    CoverageVsOut_0 o_1;\n\n    CoverageBandUniforms_0 _S9 = CoverageBandUniforms_0(u_0.bpHi_0, u_0.bpLo_0, u_0.bpLen_0, u_0.hpZero_0, u_0.canvasW_0, u_0.canvasH_0, u_0.covHeight_0, u_0.covYOffset_0, u_0.covTop_0, u_0.regionMaxDepth_0, u_0.depthDomainMax_0, u_0.depthDomainMin_0, u_0.coverageSymlogConstant_0, u_0.binSize_0, u_0.interbaseHeight_0, u_0.snpMinFreq_0, u_0.reversed_0, u_0.coverageScaleType_0, u_0.colorCoverage_0, u_0.colorBaseA_0, u_0.colorBaseC_0, u_0.colorBaseG_0, u_0.colorBaseT_0, u_0.colorBaseN_0, u_0.colorInsertionIndicator_0, u_0.colorSoftclipIndicator_0, u_0.colorHardclipIndicator_0);\n    o_1.position_0 = covSegQuad_0(a_position, 1U, a_yOffset, a_segHeight, a_relDepth, quadLocal_0(uint(gl_VertexID)), _S9);\n\n    o_1.color_0 = vec4(covSnpColor_0(a_colorType, _S9), 1.0);\n    CoverageVsOut_0 _S10 = o_1;\n\n    gl_Position = o_1.position_0;\n\n    v_color = _S10.color_0;\n\n    return;\n}\n\n"
+
+export const GLSL_FRAGMENT = "#version 300 es\nprecision highp float;\nprecision highp int;\nlayout(location = 0)\nout vec4 entryPointParam_fs_main_0;\n\n\nin vec4 v_color;\n\n\nvoid main()\n{\n\n    entryPointParam_fs_main_0 = v_color;\n\n    return;\n}\n\n"
+
+export * from './coverageSnp.iface.generated.ts'

package/src/shaders/coverageSnp.iface.generated.ts

@@ -0,0 +1,211 @@
+// AUTO-GENERATED by packages/shader-tools/src/shader-codegen from coverageSnp.slang.
+// Do not edit. Run `pnpm gen:shaders` to regenerate.
+
+import type { VertexAttributeLayout, ShaderBinding } from '@jbrowse/render-core/hal'
+
+export const BINDINGS: readonly ShaderBinding[] = [
+  { index: 1, kind: 'uniform', name: 'u' },
+]
+
+export const VERTS_PER_INSTANCE = 6
+
+export const UNIFORMS_SIZE_BYTES = 112
+
+// Word indices into a Float32Array view over the uniform buffer.
+export const UNIFORM_OFFSET_F32 = {
+  bpHi: 0,
+  bpLo: 1,
+  bpLen: 2,
+  hpZero: 3,
+  canvasW: 4,
+  canvasH: 5,
+  covHeight: 6,
+  covYOffset: 7,
+  covTop: 8,
+  regionMaxDepth: 9,
+  depthDomainMax: 10,
+  depthDomainMin: 11,
+  coverageSymlogConstant: 12,
+  binSize: 13,
+  interbaseHeight: 14,
+  snpMinFreq: 15,
+  reversed: 16,
+} as const
+
+// Word indices into a Uint32Array view over the uniform buffer.
+export const UNIFORM_OFFSET_U32 = {
+  colorCoverage: 18,
+  colorBaseA: 19,
+  colorBaseC: 20,
+  colorBaseG: 21,
+  colorBaseT: 22,
+  colorBaseN: 23,
+  colorInsertionIndicator: 24,
+  colorSoftclipIndicator: 25,
+  colorHardclipIndicator: 26,
+} as const
+
+// Word indices into a Int32Array view over the uniform buffer.
+export const UNIFORM_OFFSET_I32 = {
+  coverageScaleType: 17,
+} as const
+
+
+export interface Uniforms {
+  bpHi: number
+  bpLo: number
+  bpLen: number
+  hpZero: number
+  canvasW: number
+  canvasH: number
+  covHeight: number
+  covYOffset: number
+  covTop: number
+  regionMaxDepth: number
+  depthDomainMax: number
+  depthDomainMin: number
+  coverageSymlogConstant: number
+  binSize: number
+  interbaseHeight: number
+  snpMinFreq: number
+  reversed: number
+  coverageScaleType: number
+  colorCoverage: number
+  colorBaseA: number
+  colorBaseC: number
+  colorBaseG: number
+  colorBaseT: number
+  colorBaseN: number
+  colorInsertionIndicator: number
+  colorSoftclipIndicator: number
+  colorHardclipIndicator: number
+}
+
+export function writeUniforms(buf: ArrayBuffer, uniforms: Uniforms) {
+  const f32 = new Float32Array(buf)
+  const u32 = new Uint32Array(buf)
+  const i32 = new Int32Array(buf)
+  f32[0] = uniforms.bpHi
+  f32[1] = uniforms.bpLo
+  f32[2] = uniforms.bpLen
+  f32[3] = uniforms.hpZero
+  f32[4] = uniforms.canvasW
+  f32[5] = uniforms.canvasH
+  f32[6] = uniforms.covHeight
+  f32[7] = uniforms.covYOffset
+  f32[8] = uniforms.covTop
+  f32[9] = uniforms.regionMaxDepth
+  f32[10] = uniforms.depthDomainMax
+  f32[11] = uniforms.depthDomainMin
+  f32[12] = uniforms.coverageSymlogConstant
+  f32[13] = uniforms.binSize
+  f32[14] = uniforms.interbaseHeight
+  f32[15] = uniforms.snpMinFreq
+  f32[16] = uniforms.reversed
+  i32[17] = uniforms.coverageScaleType
+  u32[18] = uniforms.colorCoverage
+  u32[19] = uniforms.colorBaseA
+  u32[20] = uniforms.colorBaseC
+  u32[21] = uniforms.colorBaseG
+  u32[22] = uniforms.colorBaseT
+  u32[23] = uniforms.colorBaseN
+  u32[24] = uniforms.colorInsertionIndicator
+  u32[25] = uniforms.colorSoftclipIndicator
+  u32[26] = uniforms.colorHardclipIndicator
+}
+
+export const INSTANCE_STRIDE_BYTES = 20
+export const INSTANCE_STRIDE_WORDS = 5
+
+// Word indices into a Float32Array view over the instance buffer.
+export const INSTANCE_OFFSET_F32 = {
+  yOffset: 1,
+  segHeight: 2,
+  colorType: 3,
+  relDepth: 4,
+} as const
+
+// Word indices into a Uint32Array view over the instance buffer.
+export const INSTANCE_OFFSET_U32 = {
+  position: 0,
+} as const
+
+export const VERTEX_ATTRIBUTES: readonly VertexAttributeLayout[] = [
+  { name: 'a_position', components: 1, type: 'uint', offsetBytes: 0, integer: true },
+  { name: 'a_yOffset', components: 1, type: 'float', offsetBytes: 4, integer: false },
+  { name: 'a_segHeight', components: 1, type: 'float', offsetBytes: 8, integer: false },
+  { name: 'a_colorType', components: 1, type: 'float', offsetBytes: 12, integer: false },
+  { name: 'a_relDepth', components: 1, type: 'float', offsetBytes: 16, integer: false },
+]
+
+export interface InstanceArrays {
+  position: ArrayLike<number>
+  yOffset: ArrayLike<number>
+  segHeight: ArrayLike<number>
+  colorType: ArrayLike<number>
+  relDepth: ArrayLike<number>
+}
+
+export function packInstances(
+  arrays: InstanceArrays,
+  numInstances: number,
+  buf: ArrayBuffer = new ArrayBuffer(numInstances * INSTANCE_STRIDE_BYTES),
+) {
+  const f32 = new Float32Array(buf)
+  const u32 = new Uint32Array(buf)
+  const { position, yOffset, segHeight, colorType, relDepth } = arrays
+  for (let i = 0; i < numInstances; i++) {
+    const o = i * INSTANCE_STRIDE_WORDS
+    u32[o + 0] = position[i]!
+    f32[o + 1] = yOffset[i]!
+    f32[o + 2] = segHeight[i]!
+    f32[o + 3] = colorType[i]!
+    f32[o + 4] = relDepth[i]!
+  }
+  return buf
+}
+
+// Instance `i`'s `position`.
+export function getInstancePosition(u32: Uint32Array, i: number) {
+  return u32[i * INSTANCE_STRIDE_WORDS]!
+}
+
+export function setInstancePosition(u32: Uint32Array, i: number, v: number) {
+  u32[i * INSTANCE_STRIDE_WORDS] = v
+}
+
+// Instance `i`'s `yOffset`.
+export function getInstanceYOffset(f32: Float32Array, i: number) {
+  return f32[i * INSTANCE_STRIDE_WORDS + 1]!
+}
+
+export function setInstanceYOffset(f32: Float32Array, i: number, v: number) {
+  f32[i * INSTANCE_STRIDE_WORDS + 1] = v
+}
+
+// Instance `i`'s `segHeight`.
+export function getInstanceSegHeight(f32: Float32Array, i: number) {
+  return f32[i * INSTANCE_STRIDE_WORDS + 2]!
+}
+
+export function setInstanceSegHeight(f32: Float32Array, i: number, v: number) {
+  f32[i * INSTANCE_STRIDE_WORDS + 2] = v
+}
+
+// Instance `i`'s `colorType`.
+export function getInstanceColorType(f32: Float32Array, i: number) {
+  return f32[i * INSTANCE_STRIDE_WORDS + 3]!
+}
+
+export function setInstanceColorType(f32: Float32Array, i: number, v: number) {
+  f32[i * INSTANCE_STRIDE_WORDS + 3] = v
+}
+
+// Instance `i`'s `relDepth`.
+export function getInstanceRelDepth(f32: Float32Array, i: number) {
+  return f32[i * INSTANCE_STRIDE_WORDS + 4]!
+}
+
+export function setInstanceRelDepth(f32: Float32Array, i: number, v: number) {
+  f32[i * INSTANCE_STRIDE_WORDS + 4] = v
+}

package/src/shaders/coverageSnp.slang

@@ -0,0 +1,52 @@
+// SNP segments stacked on the coverage bars, showing the A/C/G/T/N fraction per
+// position. colorType encodes 1=A 2=C 3=G 4=T 5=N. Shared by the alignments
+// pileup band and the MAF band — see coverageBand.slang.
+//! targets: wgsl, glsl
+//! layout-out: packages/alignments-core/src/snpCoverageLayout.generated.ts
+
+import coverageBand;
+import hpmath;
+
+public static const uint VERTS_PER_INSTANCE = 6u;
+[[vk::binding(1, 0)]] ConstantBuffer<CoverageBandUniforms> u;
+
+// yOffset/segHeight are fractions of THIS position's coverage bar (not regional).
+// relDepth = totalDepthAtPos / regionMaxDepth feeds the bar-height calculation
+// via covNormalizeDepth, so each segment is a linear slice of a possibly
+// log-scaled bar without any per-position un-mixing at draw time.
+//
+// Which means that on a LOG axis the coloured fraction reads as the allele
+// proportion and not as a count off the y-axis: a 50% allele is half the bar
+// whatever the scale, so its top edge does not land on the depth the axis would
+// read there. Deliberate — the alternative bakes the axis into the buffer and
+// needs a repack on every autoscale change — and written down in
+// reference/DEEP_COVERAGE.md, because the two readings differ.
+struct Instance {
+  uint  position   : ATTR0;
+  float yOffset    : ATTR1;
+  float segHeight  : ATTR2;
+  float colorType  : ATTR3;
+  float relDepth   : ATTR4;
+};
+
+[shader("vertex")]
+CoverageVsOut vs_main(Instance inst, uint vid : SV_VertexID) {
+  // The allele-fraction floor. `segHeight` IS this allele's share of the
+  // position's depth, so the test is the setting with no conversion. Folding
+  // the vertex rather than shrinking the segment is what leaves the stack above
+  // it where it was: the grey depth bar underneath is ungated, so the hidden
+  // slice reads as reference. Canvas2D's `drawSnpSegments` runs the same test.
+  if (inst.segHeight < u.snpMinFreq) {
+    return covDiscardVertex();
+  }
+  CoverageVsOut o;
+  o.position = covSegQuad(inst.position, 1u, inst.yOffset, inst.segHeight,
+                          inst.relDepth, quadLocal(vid), u);
+  o.color = float4(covSnpColor(inst.colorType, u), 1.0);
+  return o;
+}
+
+[shader("fragment")]
+float4 fs_main(CoverageVsOut fragIn) : SV_Target {
+  return fragIn.color;
+}

package/src/shaders/diagonalGrid.slang

@@ -0,0 +1,25 @@
+// Shared 45°-rotated contact-grid transform. The Hi-C contact map and the LD
+// heatmap both lay cells out as squares rotated 45° above the x-axis and then
+// place them with the same (viewScale, viewOffsetX, yScalar) triple, so the
+// rotation factor and the transform live here instead of being re-spelled — and
+// eventually drifting — in two plugins.
+//
+// Imported via `import diagonalGrid;`.
+module diagonalGrid;
+
+import hpmath;
+
+// cos(45°) = sin(45°).
+static const float ROT_45 = 0.7071067811865476;
+
+// Grid-space cell corner → clip space. `pos` is in the caller's grid units,
+// pre-rotation: bp/√2 off the payload origin for Hi-C and genomic-mode LD, cell
+// pitch for the LD uniform grid. ROT_45 collapses the √2 back out.
+public float4 diagonalCellToClip(
+  float2 pos, float2 canvasSize, float viewScale, float viewOffsetX, float yScalar
+) {
+  float rx = (pos.x + pos.y) * ROT_45;
+  float ry = (-pos.x + pos.y) * ROT_45;
+  float2 screen = float2(rx * viewScale + viewOffsetX, ry * viewScale * yScalar);
+  return screenToClip(screen, canvasSize);
+}