ftmap_poc

This directory is the static site root when deployed (e.g. GitHub Pages). All links below are relative to this page.

SILVA demo

Precomputed SILVA layout in assets/tmap_silva_freqs.js; open the plot + MSA HUD. Sequences load from BGZF fixtures/dna-sequences.fasta.gz (+ .fai / .gzi).

• SILVA tmap + MSA HUD

Where the Ty1 tmap data comes from

The 2‑D plot (points, colours, labels, tree) is not loaded from an API. It is baked into assets/ty1_rbd_flag_p2_tmap.js as a big data object (coordinates + per‑point labels), produced by an upstream Faerun/tmap export step and shipped in this bundle.

The MSA HUD loads sequence letters separately: by default from fixtures/poc_ty1_nr.fasta, or from BGZF + .fai / .gzi under ?bgzf=…. That file must contain the same sequence ids as the plot labels (after the s__ → id mapping in the bridge).

• BioWasm kalign example
• BGZF + faidx spike (see page for ?gz= / ?ids=)
• Ty1 tmap + MSA HUD (full P2 trimmed BGZF) — same library as the baked-in plot; use this on GitHub Pages for an end-to-end test.
• Ty1 + small indexed fixture — tiny FASTA for quick loads; the plot still shows the full Ty1 set, so only points whose ids exist in that fixture can align. Prefer the full P2 link above for arbitrary selections.

Setup, conda, and GitHub Actions are described in README.md in this folder (view on GitHub; it is not rendered as HTML here).