Add 3DGS genetics 4x4 fanout plan

Author: AdaWorldAPI

.claude/plans/3DGS-genetics-4x4-fanout-plan.md

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+# 3DGS Genetics 4x4 Fanout Plan — lance-graph
+
+## Goal
+
+Explore how the 3DGS raw-field and 4x4 cognitive-shader representation can fan out into genetics and molecular sequence analysis.
+
+This is an exploratory plan. It should not block the geospatial or ultrasound paths.
+
+## Core analogy
+
+```text
+3DGS geospatial field
+  local anisotropic kernels over space
+
+genetic field
+  local anisotropic kernels over sequence, expression, structure, and time
+```
+
+A genetic block is not literally a visual splat. It is a compact kernel carrying local evidence and uncertainty.
+
+## 4x4 carrier interpretation
+
+```text
+lane0: sequence coordinate / genomic locus / k-mer index
+lane1: transition state / motif covariance / edit-distance neighborhood
+lane2: expression / methylation / abundance / confidence
+lane3: time / sample / lineage / provenance
+```
+
+## (4x4)^4 grammar
+
+Use `(4x4)^4` as a four-level block hierarchy:
+
+```text
+level 0: local motif carrier
+level 1: motif block
+level 2: gene/regulatory region block
+level 3: pathway / cell-state / population block
+```
+
+This mirrors:
+
+```text
+splat -> block -> tile -> region
+motif -> gene -> pathway -> phenotype
+```
+
+## Data sources
+
+Potential future sources:
+
+```text
+FASTA / FASTQ
+variant calls
+expression matrices
+single-cell count matrices
+methylation tracks
+protein/domain annotations
+pathway graphs
+```
+
+## Graph model
+
+```text
+Sample -> SequenceFrame -> MotifBlock -> Gene -> Pathway -> Phenotype
+Sample -> ExpressionFrame -> ExpressionBlock -> CellType -> State
+```
+
+## Tables
+
+Possible tables:
+
+```text
+genetic_sources
+genetic_frames
+motif_blocks
+gene_features
+variant_features
+expression_blocks
+genetic_certificates
+```
+
+## Kernel-fit idea
+
+Convert local sequence/expression regions into kernels:
+
+```text
+sequence window
+  -> k-mer / edit neighborhood / motif statistics
+  -> 4x4 carrier
+  -> certificate
+  -> graph feature
+```
+
+## Certificates
+
+Possible certificate types:
+
+```text
+motif sampling confidence
+variant neighborhood stability
+expression block variance
+batch-effect residual
+lineage transition confidence
+quantization error
+```
+
+## HHTL relevance
+
+Use HHTL-style cascade to avoid full dense scans:
+
+```text
+HEEL: k-mer / hash prefix candidate
+HIP: edit-distance or motif score
+TWIG: expression/covariance refinement
+LEAF: exact alignment/statistical test
+```
+
+## Acceptance criteria for promotion
+
+Promote this into implementation only when:
+
+- a small public fixture is selected
+- a domain-specific decoder is scoped
+- the 4x4 carrier has a precise biological meaning
+- certificates are meaningful and not decorative
+- no medical/diagnostic claims are made
+
+## Boundary
+
+This plan is for representation and research tooling. It is not a clinical genomics product plan.