Molecular cloning, computed.

Design cloning workflows with a real compute engine underneath. Content-addressed DNA constructs in a Merkle DAG, deterministic digest and ligation operations, and A* search for optimal assembly paths.

No cloud. No subscriptions. Your sequences, your machine.

Download How the engine works

The engine

Every entity is a hash.
Every operation is a proof.

Geney doesn't just visualize plasmids — it builds a content-addressed graph of every sequence, feature, construct, and operation you create.

Data model

Content-addressed entities

Every bio entity — sequence, feature, construct, operation — is identified by a cryptographic hash of its contents. Same content, same ID. Globally, always.

                        seq_7Kx9mP2qR...

                        ftr_3nBvQ8wLm...

                        con_9pRtY4xKj...

                        op_ 2mFwS6cNd...

Operations

Deterministic transforms

Digest and ligate are pure functions. Same inputs, same enzymes, same outputs — every time. Provenance chains are fully verifiable back to the source plasmids.

                        digest con_abc + EcoRI → [con_def, con_ghi]

                        ligate con_def + con_xyz → con_final

A* pathfinding for cloning

Specify the features you want in the final construct. The search engine explores all valid digest and ligation combinations using A* with composable heuristics — feature overlap, adjacency ordering, topology constraints — and returns the optimal path.

Plasmid A

→

digest

→

Fragments

→

ligate

→

Goal

Features

Everything you need
to plan at the bench.

GenBank import

Import plasmids from GenBank or SnapGene files. Features, annotations, and topology preserved instantly.

Digest simulation

Pick restriction enzymes and simulate digests in silico. See where cuts land, what fragments result, and which overhangs form.

Ligation verification

Check overhang compatibility before you ligate. Geney verifies fragments assemble correctly and shows the resulting construct.

Procedure builder

Chain digests and ligations into multi-step procedures with a visual node editor. Validate the entire pipeline before running it.

Methylation-aware

Dam, dcm, and CpG methylation tracked per-construct. Blocked or impaired enzymes are flagged automatically.

Content-addressed

Sequences, features, and constructs identified by content hash. Import the same plasmid twice — it deduplicates automatically.

Local-first

Everything runs on your machine. Your sequences never leave your disk. No accounts, no cloud, no data sharing.

Enzyme library

Full restriction enzyme catalog with temperature ranges, methylation sensitivities, and double-digest compatibility scoring.

Provenance tracking

Every construct records which operation created it. Trace any product back through its full assembly history.