> ## Documentation Index
> Fetch the complete documentation index at: https://docs.revilico.bio/llms.txt
> Use this file to discover all available pages before exploring further.

# Revilico product changelog and release notes

> Weekly release notes for the Revilico drug discovery platform: new engines, workflow improvements, billing changes, and bug fixes.

<Update label="Week of July 6, 2026" tags={["Compound Review","CRO Directory","Adaptyv Bio","Credits","Admin","Bug Fixes"]} description="CRO Directory, Compound Review pipeline importer, Adaptyv Bio key validation, and credit-system polish">
  ### New features

  * Launched a **CRO Directory** in the admin panel, giving admins a centralized view of contract research organizations to accelerate quote and outreach workflows.
  * Added a **pipeline importer with drag-and-drop** in [Compound Review](/docs/revcompound-review), letting you seed reviews directly from prior pipeline outputs without manual re-entry.
  * Introduced a **Resend Invite** action so admins can re-send user invitations without recreating them.
  * Added an **admin result-download endpoint** and a **client outreach summary** to streamline post-run reporting.

  ### Improvements

  * Enhanced [Compound Review](/docs/revcompound-review) with campaign tagging and like/dislike feedback on compounds, plus additional review workflow refinements.
  * Added a **right-hand-side panel** for *My Experiments* and *Admin Quote* tickets so context stays visible while you work.
  * Refreshed the sidebar with a **minimize toggle for the Credit Usage widget** and restricted the billing link to admins for cleaner navigation.
  * Enforced a **1,000,000-credit cap on overage usage** to protect accounts from runaway consumption.
  * Streamlined the metered credit configuration by removing legacy pricing multipliers, producing more predictable billing behavior.
  * Improved **Adaptyv Bio** integration UX: the platform now live-validates stored API keys and surfaces missing or invalid credentials with clearer 401/403 error messaging across all Adaptyv Bio pages.
  * Improved batching behavior in Compound Review for large compound sets.

  ### Bug fixes

  * Fixed the **⌘/Ctrl + \[** shortcut so it now correctly collapses the left sidebar in classic navigation mode.
  * Resolved a **pose-loading issue** in ensemble docking that could prevent results from rendering after a run.
  * Fixed an issue where a feature flag was not applied correctly during pipeline execution.
</Update>

<Update label="July 2026" tags={["Billing","Credits","Compound Review","UI","Performance"]} description="Metered Credits, Compound Review Compare & Campaign, and a Refreshed Sidebar">
  ### Metered Credit System

  * Rolled out the Metered Credit System, moving from preview to full usage-based credit accounting for a clearer, fairer billing experience.
  * Introduced Credit Bundles — prepaid and postpaid bundles to match usage patterns.
  * Added a cap on overage credits to protect against unexpected usage spikes.
  * Streamlined credit bundle options based on early user feedback.

  ### Compound Review

  * Added Compare & Campaign to Compound Review — compare compounds side by side, with campaign tracking and like/dislike feedback.

  ### Platform

  * Refreshed the sidebar interface for easier navigation.
  * Delivered performance improvements across the platform.
</Update>

<Update label="June 2026" tags={["Credits","Project Hub","Navigation","Team Chat","RevQSAR"]} description="Metered Credit Preview, Project Hub Timeline, and Navigation Updates">
  ### Billing

  * Introduced the Metered Credit System (Preview), a refreshed credit experience ahead of full usage-based credits.
  * Added Subscription Plan Controls to enable or disable subscription plans.

  ### Project Hub & Navigation

  * Launched Project Hub Planning & Timeline — an interactive project timeline you can drag, resize, zoom, and jump to today.
  * Added Classic Navigation Mode, letting users choose between classic (always-open) and compact side navigation.

  ### Collaboration

  * Enhanced Team Chat with expanded Slack integration.

  ### Modeling & Data

  * Expanded RevQSAR & MD Descriptor modeling and analysis support, with an updated interface.
  * Added RevData Safeguards — checks when dropping data files into forms.
  * Released a second set of Demo Pipelines for RevFEP, RevMut-PMX, and RevQS.

  ### Improvements & Changes

  * Updated pipeline navigation to match new product routes.
  * Enhanced the RevMD-Bind protein-ligand pipeline.
  * Enhanced report generation.
  * Delivered overall performance and responsiveness improvements across pipelines.
</Update>

<Update label="May 2026" tags={["FEP","QSAR","Documentation","Lead Optimization"]} description="Free Energy Perturbation and QSAR Modeling">
  ### RevFEP — Cloud-Native Free Energy Perturbation

  * Launched RevFEP, a cloud-native Free Energy Perturbation engine for binding affinity prediction powered by OpenFE 1.10, OpenMM, and AWS Batch GPU execution.
  * Added support for four calculation types: RBFE (relative binding free energy), ABFE (absolute binding free energy), and complementary protocols for lead-optimization ranking.
  * Implemented seven advanced protocol stages including non-equilibrium MD, REST2 enhanced sampling, adaptive lambda optimization, and MM-GBSA pre-filtering.
  * Automated the full pipeline from raw protein–ligand complex PDB inputs through structure preprocessing, alchemical network construction, GPU simulation, and statistical analysis with uncertainty quantification.

  ### RevQSAR — Quantitative Structure–Activity Relationship Modeling

  * Released RevQSAR for downstream analysis of SMILES + property matrices generated across the platform.
  * Added multiple featurization methods: Morgan Fingerprints (ECFP), MACCS Keys, GraphConv embeddings, and ChemBERTa embeddings.
  * Added clustering modalities: K-means, hierarchical, spectral, and Tanimoto-based clustering, with UMAP, t-SNE, and PCA projections for chemical-space visualization.
  * Enables substructure and scaffold discovery to guide generative chemistry and lead expansion.

  ### Documentation

  * Published full RevFEP and RevQSAR documentation pages with workflow guides and example pipelines.

  ### Expanded Analysis & Virtual Biology

  * Introduced RevTS for transition-state analysis.
  * Brought the full RevSim Virtual Cell experience online (interface and analysis).
  * Delivered the full RevSingleCell analysis experience.
  * Added RevScreen Protein-Ligand Docking.
  * Released the full RevQS quantum-structure experience and full RevMut-PMX mutation free-energy analysis.
  * Added Data Export capabilities across modules.
  * Expanded SDF V2000 file support in the molecule viewer, and added an element-change mapping option for RevFEP.
  * Improved docking algorithms and default settings.
  * Retired the older RevGEx and RevCluster experiments to streamline the platform.
</Update>

<Update label="April 2026" tags={["RevFEP V2","RevQSAR","Dark Mode","MD Analysis","Virtual Cell"]} description="RevFEP V2, AutoQSAR, and Dark Mode V2">
  ### Free Energy & Modeling

  * Shipped RevFEP V2, a major upgrade to free-energy analysis.
  * Added RevMD-Bind Residence Time, a new residence-time MD analysis.
  * Released RevQSAR AutoQSAR modeling, with new MD Descriptor Analysis for descriptor-level insights within RevQSAR / RevAnalytics.

  ### Virtual Biology & Structure

  * Introduced RevQS quantum-structure analysis (backend and interface).
  * Added RevGRN for gene-regulatory-network analysis.
  * Brought RevSim Virtual Cell online with initial virtual-cell analysis capability.
  * Expanded RevSingleCell with new single-cell analysis features.
  * Released new demo pipelines across these capabilities.

  ### Interface

  * Launched Dark Mode V2, a refreshed dark theme with updated styling and smoother animations.
  * Enhanced the molecule viewer with integrated file downloads and the ability to download key analysis data.
  * Added on-screen guidance when selecting the CHARMM36 force field for MMPBSA.

  ### Docking

  * Set the default RevDock docking box size to 30 for better out-of-the-box results.

  ### Improvements & Changes

  * Added a friendly reminder when trying to reuse a trial plan.
  * Continued RevFEP analysis enhancements.
</Update>

<Update label="March 2026" tags={["RevFEP","Project Hub","Team Chat","Benchmarking","MD"]} description="RevFEP Launch, Project Hub, and Team Chat">
  ### RevFEP — Free-Energy Perturbation Launch

  * Launched RevFEP, powered by OpenFE, with input presets for quick setup.
  * Introduced RevBench for benchmarking across the platform.

  ### Project Hub & Collaboration

  * Launched Project Hub to organize pipelines into projects.
  * Added Team Chat with Slack channel integration.
  * Rolled out Real-Time Updates across the platform.
  * Released new demo pipelines for RevFEP, RevMut-PMX, and RevQS.

  ### Molecular Dynamics & Docking

  * Shipped RevMD-Bind MD Insights, a new MDInsights analysis for protein-ligand simulations.
  * Added RevMut-PMX mutation free-energy enhancements.
  * Enhanced RevDynamics post-processing and improved ligand detection.
  * Added support for multi-model protein structures.
  * Added on-screen guidance in Rigid Receptor and flexible docking.

  ### Platform

  * Made Central Hub noticeably faster.
  * Added credit-system support for RevConformer and RevADMET.
  * Updated feature display categories for easier navigation.
  * Delivered general Central Hub improvements.
</Update>

<Update label="February 2026" tags={["Documentation","Interpreter","Docking","MD","Pipelines","UI","Performance"]} description="Documentation, Interpreter, Docking, and Workflow Enhancements">
  ### Documentation & Guided Workflows

  * Set up Revilico Documentation and Solutions workflows ([https://docs.revilico.bio/docs](https://docs.revilico.bio/docs)).
  * Updated documentation implementations and integrated guided workflows into the right-hand side panel.
  * Added demo pipelines across all features to preview generated data for each run.
  * Added guided workflows in the right-hand side panel to assist users in conducting computational analyses.
  * Fixed pipeline sharing issues to ensure all users can access generated data.

  ### Revilico Interpreter & Guide Revamp

  * Revamped Revilico Interpreter and Guide for faster screen interpretation and seamless linking to the full documentation knowledge base.
  * Added new models (GPT-5.2, Claude Sonnet 4.6) for smarter and more accurate interpretation.
  * Improved Revilico Guide with integrated knowledge base querying and a transparent UI/UX.
  * Integrated dual functionality of the Revilico Guide and Interpreter into a unified transparent UI with accessibility from the right-hand side panel.

  ### Docking & Virtual Screening

  * Added Blind Docking and expanded box configuration in the Virtual Screening engine (Flexible Docking).
  * Flexible Docking now supports multiplexed screens, enabling multi-receptor inputs against larger chemical libraries with CNN rescoring and pose refinements.

  ### Molecular Dynamics (MD)

  * Improved MD simulation PDB extraction to create ensemble docking pipelines across multiple trajectories.
  * Fixed issues related to erroneous structures generated during trajectory extraction.
  * Enabled sub-pipeline termination across all MD features for multi-complex inputs, allowing users to stop full experiments across all sub-pipelines.

  ### Models & Large-Scale Pipelines

  * Enabled large input set processing in Geometric Minimization and Thermochemistry workflows for scalable data abstractions.
  * Stabilized ADMET, Pharmacophore Analysis, and Retrosynthesis capabilities for improved reliability and performance.
</Update>

<Update label="January 2026" tags={["MD","Analysis","Retrosynthesis","Performance","UI"]} description="MD, Analysis, and Pipeline Enhancements">
  ### Molecular Dynamics (MD)

  * Upgraded MD engine to Revilico’s latest R\&D version across all MD features.
  * Added support for 4-point water models: TIP4P, OPC, and OPC3 for improved simulation accuracy.
  * Expanded Ligand Membrane MD simulations with additional lipids and membrane systems for permeability analysis.
  * Delivered performance optimizations resulting in faster MD simulation execution.

  ### Simulation Configuration

  * Added UI components to configure solvents and solvent concentrations across MD workflows.
  * Included ion concentration configuration to better resemble biological conditions.

  ### Analysis & Visualization

  * Introduced RMSF plots and RMSF trajectory visualization tools with spatial fluctuation color mapping across protein surfaces.
  * Enhanced Protein–Ligand MD analysis with detailed comparison tables including MM(PB/GB)SA, decomposition, and PCA insights for improved free energy estimation across trajectories.

  ### Models & Pipelines

  * Updated Geometry Minimization and Thermochemistry Neural Network Potential (NNP) model weights.
  * Added solvent configuration support to resemble physiological conditions.
  * Synchronized Boltz Co-Folding and Virtual Screening Docking pipelines with Protein–Ligand MD input sequences.
  * Standardized download file naming for improved analysis and seamless workflows.

  ### Retrosynthesis

  * Upgraded Retrosynthesis Engine to the latest Revilico R\&D version with architectural and performance improvements.

  ### Reliability & Operations

  * Implemented automated Jira ticket creation on pipeline failures for improved incident tracking and operational visibility.
  * New issues are automatically logged and triaged, enabling faster resolution within 24 hours.
</Update>

<Update label="December 2025" tags={["Docking","ABFE/RBFE","Pharmacophore","Architecture","Visualization"]} description="Docking, Free Energy, and Architecture Updates">
  ### Docking & Pose Prediction

  * Replaced classical empirical docking model with physics-based search algorithms powered by deep learning CNNs for more accurate poses and binding affinity calculations in Flexible and Ensemble Docking.
  * Added the ability to extract receptor structures directly from Protein-in-Water MD simulations within defined timeframes and custom intervals for structural analysis across MD timescales.
  * Introduced advanced configuration options to extract individual receptors at specific trajectory frame intervals for Ensemble Docking workflows.
  * Enhanced Ensemble Docking workflows to allow grid box configuration across all trajectory structures.

  ### Visualization & UI

  * Improved docking visualization UI to better identify and analyze binding sites and filter docking data effectively.

  ### Free Energy Calculations (Beta)

  * Introduced ABFE and RBFE engines (Beta) enabling advanced alchemical transformations to compute ΔG binding of complexes.

  ### Platform & Architecture

  * Implemented multiple stability enhancements across the platform.
  * Implemented the Pharmacophore engine using Pritam Kumar Panda’s designs.
  * Designed a new transcriptomic architecture for large-scale batch processing, improving scalability, reliability, and pipeline modularity for heavy workloads.

  ### Ligand Modeling

  * Implemented ligand conformer search to generate low-energy 3D conformations, improving docking pose coverage and allowing chemists to evaluate energetic penalties across ligand–protein complexes.
</Update>