{"id":19417364,"url":"https://github.com/neuronets/nobrainer-book","last_synced_at":"2026-03-19T09:46:51.959Z","repository":{"id":57970988,"uuid":"529447723","full_name":"neuronets/nobrainer-book","owner":"neuronets","description":"Tutorial and guides for the Nobrainer framework","archived":false,"fork":false,"pushed_at":"2024-07-18T12:51:46.000Z","size":3690,"stargazers_count":0,"open_issues_count":1,"forks_count":1,"subscribers_count":3,"default_branch":"master","last_synced_at":"2025-01-07T17:19:27.232Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"http://neuronets.dev/nobrainer-book/","language":null,"has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/neuronets.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2022-08-27T01:14:26.000Z","updated_at":"2024-07-18T12:51:50.000Z","dependencies_parsed_at":"2024-03-08T23:31:29.263Z","dependency_job_id":"a64eb430-f9ed-42cc-a73a-1637c106fc0a","html_url":"https://github.com/neuronets/nobrainer-book","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/neuronets%2Fnobrainer-book","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/neuronets%2Fnobrainer-book/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/neuronets%2Fnobrainer-book/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/neuronets%2Fnobrainer-book/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/neuronets","download_url":"https://codeload.github.com/neuronets/nobrainer-book/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":240595487,"owners_count":19826373,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":[],"created_at":"2024-11-10T13:09:09.070Z","updated_at":"2026-03-19T09:46:51.952Z","avatar_url":"https://github.com/neuronets.png","language":null,"funding_links":[],"categories":[],"sub_categories":[],"readme":"# Nobrainer Book\n\nTutorials and guides for [Nobrainer](https://github.com/neuronets/nobrainer) —\na deep learning framework for 3D brain image processing.\n\n## Tutorials\n\nFollow these tutorials in order for a complete learning journey:\n\n| # | Tutorial | What you'll learn |\n|---|----------|-------------------|\n| 01 | Getting Started | Install, import, explore available models |\n| 02 | Download \u0026 Inspect | Get sample brain MRI data, understand NIfTI format |\n| 03 | Extract \u0026 Batch | Prepare training data with patches and datasets |\n| 04 | Brain Segmentation | Train a UNet in 3 lines with the estimator API |\n| 05 | Uncertainty | Bayesian inference with variance and entropy maps |\n| 06 | Brain Generation | Synthesize brain volumes with Progressive GAN |\n| 07 | Advanced Training | Custom PyTorch loops for full control |\n| 08 | Model Management | Save/load with Croissant-ML metadata |\n| 09 | Zarr Pipeline | Cloud-optimized multi-resolution storage |\n| 10 | Multi-GPU | Scale training across GPUs with DDP |\n| 11 | Contributing | Add models, write tests, submit PRs |\n\n## Run in Google Colab\n\n**Stable release** (master):\n[![Open In Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/github/neuronets/nobrainer-book/blob/master)\n\n**Pre-release** (alpha):\n[![Open In Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/github/neuronets/nobrainer-book/blob/alpha)\n\n## Branches\n\n| Branch | Nobrainer version | Install |\n|--------|-------------------|---------|\n| master | Stable | `pip install nobrainer` |\n| alpha | Pre-release | `pip install --pre nobrainer` |\n\n## Run locally\n\n```bash\nuv venv --python 3.14\nsource .venv/bin/activate\nuv pip install \"nobrainer[bayesian,generative,zarr]\" monai pyro-ppl nilearn matplotlib\nfor script in docs/nobrainer-guides/scripts/[01]*.py; do python \"$script\"; done\n```\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fneuronets%2Fnobrainer-book","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fneuronets%2Fnobrainer-book","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fneuronets%2Fnobrainer-book/lists"}