Skip to content

Releases: flyark/LIVIA

LIVIA v0.1.1

12 Apr 10:37
@flyark flyark
v0.1.1
c836494

Choose a tag to compare

View all tags
LIVIA v0.1.1 Latest
Latest

What's New in v0.1.1

Per-Residue Intra-chain LIS & pLDDT Charts

  • Prediction Analysis: Per-residue intra-chain LIS and pLDDT plots across all models with avg ± SD shading and selected model overlay. Supports multi-chain (3+) with per-chain color coding.
  • AFDB Dimer: Dimer vs Monomer comparison — automatically fetches monomer predictions from AlphaFold DB and compares per-residue intra-chain LIS and pLDDT between monomer and dimer contexts. Shows gain/loss shading.
  • FlyPredictome & Ortholog Interactome: Per-residue pLDDT charts across all ranks with avg ± SD shading. Progressively updates as rank PDBs are fetched.

FlyPredictome Enhancements

  • Gene Pair search tab: Enter two gene names to directly look up their interaction, with UniProt autocomplete, partial protein detection, and multi-result selection table.
  • Partner search filter: Text search input in the "Search by Gene" partner table for quickly finding specific genes in large result sets (e.g., 2000+ partners).

Bug Fixes

  • Fixed Sequence Viewer not updating when switching models in Prediction Analysis (was showing union of all models instead of selected model).
Assets 2
Loading

LIVIA v0.1

24 Mar 22:26
@flyark flyark
v0.1
c81749f

Choose a tag to compare

View all tags
LIVIA v0.1

Local Interaction VIsualization and Analysis tools for protein structure predictions.

Pages

  • Prediction Analysis — General-purpose analysis for AlphaFold2/AF3/ColabFold/Boltz/Chai-1/OpenFold3
  • FlyPredictome — Drosophila protein-protein interaction analysis from FlyPredictome
  • Ortholog Predictome — Ortholog interaction predictions from FlyPredictome
  • AlphaFold DB Dimer — Two-chain complex analysis from AlphaFold Protein Structure Database
  • Monomer Subdomain — Single-chain subdomain interaction analysis from AlphaFold Protein Structure Database

Features

  • Interaction residue detection (LIR / cLIR)
  • iLIS / iLIA / iLISA calculation
  • Mol* 3D structure viewer with custom coloring
  • ChimeraX and PyMOL script generation with multiple color modes
  • Interactive sequence viewer, contact maps, chord diagrams
  • Color presets: gradient, solid, high contrast
  • Show complete structure toggle
  • Gray non-LIR option for highlighting interacting residues
  • Multi-prediction folder support with job selector
Loading