Add cache-optimized batch retrieval and sub-matrix methods

Introduces batch retrieval and sub-matrix extraction methods across vector, view, reader, and matrix types. These implementations optimize cache locality by sorting requested indices for sequential memory access before applying an inverse permutation to restore original order. Includes allocation-free variants that populate caller-provided buffers. Updates architecture documentation to define sibling annex persistence in iteration order and clarify pipeline separation.
2026-08-16 14:01:35 +02:00
parent dae543fdfc
commit b1f54b7d2f
9 changed files with 375 additions and 0 deletions
@@ -58,6 +58,7 @@ nav:
  - Architecture:
      - Sequences: architecture/sequences/invariant.md
      - Kmer index: architecture/index_architecture.md
+      - Sibling annex (discussion): architecture/siblings.md
      - NUMA-aware worker pools: architecture/numa_worker_pools.md
      - NUMA-aware partition runner: architecture/numa_partition_runner.md