Search results

Publish dada2-rs to crates.io: gate WFA behind a developer build

enhancementNew feature or requestNew feature or request

Status: Open.

#63 In HPCBio/dada2-rs;

· cjfields opened on Jun 27, 2026

Refine chimera-diagnostics (higher-order/trimera screening) and validate against truth set

Status: Open.

#55 In HPCBio/dada2-rs;

· cjfields opened on Jun 19, 2026

Optimize the WFA backend on long (PacBio) reads

Status: Open.

#51 In HPCBio/dada2-rs;

· cjfields opened on Jun 19, 2026

Evaluate alignment paradigms that solve the global problem differently (pair-HMM, WFA)

Status: Open.

#49 In HPCBio/dada2-rs;

· cjfields opened on Jun 18, 2026

experiment: raise k-mer cap above 8 — are the extra ASVs real? (needs mock-community truth set)

Status: Open.

#44 In HPCBio/dada2-rs;

· cjfields opened on Jun 17, 2026

perf: MiSeq pooled dada under-utilizes cores — serial bud/shuffle/p_update (Amdahl), parallelize

Status: Open.

#33 In HPCBio/dada2-rs;

· cjfields opened on Jun 11, 2026

perf/io: encode sequences (2-bit) to shrink resident + on-disk footprint (follow-up to #23)

Status: Open.

#28 In HPCBio/dada2-rs;

· cjfields opened on Jun 8, 2026

perf: optimize the scalar NW path (band-only storage; unify homopolymer/plain kernels)

enhancementNew feature or requestNew feature or request

Status: Open.

#21 In HPCBio/dada2-rs;

· cjfields opened on Jun 6, 2026

GPU acceleration

Status: Open.

#17 In HPCBio/dada2-rs;

· cjfields opened on May 22, 2026

Move from JSON as an intermediary format to something more efficient?

low priorityLower priority tickets; good to check but not necessaryLower priority tickets; good to check but not necessary

Status: Open.

Feature

#1 In HPCBio/dada2-rs;

· cjfields opened on Apr 15, 2026