LIVIA — Tutorials

Step-by-step visual walkthroughs for each LIVIA tool

Learn LIVIA by Example

Each tutorial below walks through a real workflow with auto-advancing screenshots. Click any step to jump to it, or let it play through automatically. Ready to try it yourself? Click the Try it button.

Prediction Analysis

Upload prediction files from any platform and analyze interface confidence

Try it →
1
Upload your prediction files or select example files
2
Review confidence metrics — iLIS, ipSAE, ipTM for each model
3
Explore PAE, LIS, and cLIS heatmaps across all models
4
Sequence Viewer — interaction residues highlighted
5
Linear Contact Map — cLIR residue pairs within Cβ 8 Å
6
View the 3D structure in Mol* viewer
7
Adjust color presets for the visualization
8
Per-Residue intra-chain LIS & pLDDT charts
Tutorial step
Upload prediction files or pick a p53–MDM2 example

Bookmarklet for AFDB and FlyPredictome

One-click jump from AlphaFold DB or FlyPredictome straight into LIVIA

Install →
1
Drag the Open in LIVIA button to your browser's bookmarks bar (one-time)
2
Open any AlphaFold DB dimer entry page
3
Click the bookmark — LIVIA dimer opens in a new tab with metrics auto-loaded
4
Interactive 3D structure of the dimer in Mol* viewer
5
Same workflow on FlyPredictome — visit a famdb_details page and click the bookmark
6
LIVIA FlyPredictome opens with the same analysis pipeline
7
FlyPredictome's ortholog detail pages also route to LIVIA Ortholog
Tutorial step
Install the bookmarklet by dragging the blue button to your bookmarks bar

Install the bookmarklet

Drag the blue button to your browser's bookmarks bar. On an AlphaFold DB entry or a FlyPredictome details page, click the bookmark and LIVIA opens the matching analysis page automatically.

Open in LIVIA ← drag to your bookmarks bar
If the bookmarks bar isn't visible, enable it with View → Show Bookmarks Bar or Ctrl/Cmd+Shift+B.

Where it works

AlphaFold DB dimer/complex → AFDB Dimer · AFDB monomer → AFDB Monomer Subdomain · FlyPredictome → FlyPredictome · FlyPredictome ortholog → Ortholog Interactome. On any other page it shows a short message and does nothing.

If drag doesn't work

Right-click the bookmarks bar → Add page, name it LIVIA, and paste this as the URL:

javascript:(function(){var u=location.href,p=location.origin+location.pathname,t=null,m;if(m=u.match(/alphafold\.ebi\.ac\.uk\/entry\/(AF-\d+)/))t='https://flyark.github.io/LIVIA/dimer.html?id='+m[1];else if(m=u.match(/alphafold\.ebi\.ac\.uk\/entry\/(?:AF-)?([A-Z][0-9][A-Z0-9]{3}[0-9](?:[A-Z][A-Z0-9]{2}[0-9])?)/i))t='https://flyark.github.io/LIVIA/monomer.html?id='+m[1].toUpperCase();else if(/flyrnai\.org\/tools\/fly_predictome\/web\/famdb_details_ortho\//.test(u))t='https://flyark.github.io/LIVIA/ortholog_predictome.html?url='+encodeURIComponent(p);else if(/flyrnai\.org\/tools\/fly_predictome\/web\/famdb_details\//.test(u))t='https://flyark.github.io/LIVIA/flypredictome.html?url='+encodeURIComponent(p);if(t)window.open(t,'_blank','noopener');else alert('LIVIA: Unsupported page. Use on an AlphaFold DB entry page (alphafold.ebi.ac.uk/entry/...) or FlyPredictome details page (flyrnai.org/.../famdb_details[_ortho]/...).');})();