Issues

• [FEAT] SeqSet sequence export

  enhancement
  pathoplexus/pathoplexus#1193 · Filter by author jennifer-bio opened on Oct 15, 2026

• [BUG] Breadth and depth of coverage should use float not int type

  bug
  pathoplexus/pathoplexus#1187 · Filter by author corneliusroemer opened on Oct 6, 2026

• [BUG] No metadata field to specify threshold for breadth of coverage, also no fixed threshold defined

  bug
  pathoplexus/pathoplexus#1186 · Filter by author corneliusroemer opened on Oct 6, 2026

• [FEAT] Enable sharing of wastewater sequencing data

  enhancement
  pathoplexus/pathoplexus#1181 · Filter by author joshuailevy opened on Oct 2, 2026

• Regenerate deacon index after chikungunya launch

  pathoplexus/pathoplexus#1171 · Filter by author corneliusroemer-agent opened on Sep 28, 2026

• Use CloudFront for file downloads once S3 egress becomes significant

  pathoplexus/pathoplexus#1169 · Filter by author corneliusroemer opened on Sep 27, 2026

• [FEAT] Improve programmatic metadata description acces

  enhancement
  pathoplexus/pathoplexus#1150 · Filter by author anna-parker opened on Sep 17, 2026
  2

• Adapt db-clone to check no relevant write happened since clone started

  enhancement
  pathoplexus/pathoplexus#1145 · Filter by author corneliusroemer opened on Sep 15, 2026

• Split out dependabot PRs from features in changelog

  pathoplexus/pathoplexus#1133 · Filter by author maverbiest opened on Aug 28, 2026
  

• [FEAT] Visual icons or symbols to identify direct upload, data terms

  enhancement
  pathoplexus/pathoplexus#1130 · Filter by author ammaraziz opened on Aug 28, 2026

• Update db clone to not do a sed replacement in version comments

  bug
  pathoplexus/pathoplexus#1127 · Filter by author anna-parker opened on Aug 27, 2026

• [FEAT] Add Cite a SeqSet to Seqset Docs

  documentationenhancement
  pathoplexus/pathoplexus#1093 · Filter by author emmahodcroft opened on Aug 5, 2026

• [BUG] Clear Dengue serotype 2 seq classified as "unassigned" due to lack of more specific annotations

  bug
  pathoplexus/pathoplexus#1085 · Filter by author corneliusroemer opened on Jul 28, 2026
  1

• Add Claude Github for issue/PR triage/review similar to Loculus setup

  enhancement
  pathoplexus/pathoplexus#1084 · Filter by author corneliusroemer opened on Jul 27, 2026

• Potentially change group name to drop or reword "Loculus"

  discussion
  pathoplexus/pathoplexus#1083 · Filter by author corneliusroemer opened on Jul 27, 2026
  1

• Update upload-sequences docs to point to new metadata template location in docs

  pathoplexus/pathoplexus#1071 · Filter by author corneliusroemer opened on Jul 14, 2026
  2

• Expand Seqset docs to mention benefits of sharing with DOI URL, give examples

  documentationenhancement
  pathoplexus/pathoplexus#1065 · Filter by author corneliusroemer opened on Jul 1, 2026

• Docs/FAQ on using revision after revocation + encourage revisions instead of revocation

  enhancement
  pathoplexus/pathoplexus#1058 · Filter by author chaoran-chen opened on Jun 28, 2026

• Use multi-dataset=True for Nextclade linkouts where appropriate (e.g. DENV, mpox, multi-segmented)

  enhancement
  pathoplexus/pathoplexus#1043 · Filter by author corneliusroemer opened on Jun 17, 2026

• Adapting prod-> staging clone script to also replicate s3 files

  devops
  pathoplexus/pathoplexus#1040 · Filter by author corneliusroemer opened on Jun 16, 2026

• All geographic fields should probably be consecutive in column order (when enabled)

  pathoplexus/pathoplexus#1023 · Filter by author theosanderson opened on Jun 8, 2026

• Reduce zstd compression level for all but prod/demo (and maybe staging)

  pathoplexus/pathoplexus#993 · Filter by author corneliusroemer opened on Jun 1, 2026
  2

• Give all cluster infra components some CPU requests

  devops
  pathoplexus/pathoplexus#989 · Filter by author corneliusroemer opened on May 29, 2026
  1

• [FEAT] Avoid ingesting constructs/patents

  enhancement
  pathoplexus/pathoplexus#967 · Filter by author emmahodcroft opened on May 20, 2026
  2

• [FEAT] Add a flag for RefSeq

  enhancement
  pathoplexus/pathoplexus#963 · Filter by author emmahodcroft opened on May 19, 2026
  3