Open sigscape studio

sigscape studio

Open-source software to study mutational signatures.

Software

MuTopia
SigMA
SigMA2
Tau
sigscape studio

Catalogs

MuTopia Atlas
Tau on PCAWG

Resources

GitHub
Park Lab @ HMS
Gülhan Lab @ MGH & HMS
Terms & Conditions
Privacy Policy

Site

Studio
Docs
About

© 2026 by the President and Fellows of Harvard College. All rights reserved.

Documentation

Install guides, tutorials and API reference for each package. Search filters every tree at once.

MuTopia

Getting started/Installation System requirements

Building G-Tensors Analyzing G-Tensors Tuning and training models Analyzing topographic models Annotating VCFs with a pre-trained model Genome-browser plotting

GTensor API TopographyModel API Plot API

tracks transforms

SBS Modality Base ModeConfig

SigMA

Optimizing for your dataset FAQs

Installation Package description

Quick start Parameter choices

Input file format Classification

SigMA2

Overview Install Quickstart

Choose the analysis

Migrate from SigMA v1

1. Prepare your input files

2. Detect a signature (SBS3, APOBEC, any other)

4. Detect MMRD or POLE

5. Read the output

6. Plot spectra and exposures

Worked example: fifty breast panels

Worked example: HRD on exomes

Adapt SigMA2 to your own data

Train a classifier

Curate training labels

Manage models and the store

Worked example: train on your own genomes

In sigscape studio

Reproduce SigMA v1

What a call means

How a classifier scores a panel

Floor, cutoffs and catalog

Models and the store

Inputs and data

Bundled classifiers

Example files and environment

Files and formats

License and citation

Tau

Installation Demo data Quickstart notebook

Method background

sigscape studio

Preview access Install the runner Connect Run a tool Input data Sessions Runs, checkpoints, export Stacks and workflows Data on the runner Updates and releases Tools and their versions Headless and cluster runs From variants to spectra Utilities, share links and recipes The de novo workbench Assays and opportunity Refit confidence The refit benchmark Mapping onto PCAWG The sample explorer Timing: before and after a gain Signature dossiers SigMA2 in the studio Design a study The PCAWG reference bundle

Genome builds and liftover Recipes and reproducibility Checking a result Troubleshooting For AI agents sigscape-daemon reference