{"id":19448480,"url":"https://github.com/neurodata/cloudreg","last_synced_at":"2025-06-28T20:11:18.133Z","repository":{"id":37953769,"uuid":"204720122","full_name":"neurodata/CloudReg","owner":"neurodata","description":"CloudReg","archived":false,"fork":false,"pushed_at":"2024-04-05T13:44:27.000Z","size":94111,"stargazers_count":11,"open_issues_count":5,"forks_count":8,"subscribers_count":3,"default_branch":"master","last_synced_at":"2025-05-26T18:17:55.834Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"https://cloudreg.neurodata.io","language":"MATLAB","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/neurodata.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","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,"zenodo":null}},"created_at":"2019-08-27T14:23:04.000Z","updated_at":"2025-01-14T06:28:34.000Z","dependencies_parsed_at":"2025-04-25T03:02:16.818Z","dependency_job_id":null,"html_url":"https://github.com/neurodata/CloudReg","commit_stats":{"total_commits":190,"total_committers":6,"mean_commits":"31.666666666666668","dds":"0.46842105263157896","last_synced_commit":"3598aecdc1c92461851cb99e6947a20c2ddf1809"},"previous_names":[],"tags_count":1,"template":false,"template_full_name":null,"purl":"pkg:github/neurodata/CloudReg","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/neurodata%2FCloudReg","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/neurodata%2FCloudReg/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/neurodata%2FCloudReg/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/neurodata%2FCloudReg/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/neurodata","download_url":"https://codeload.github.com/neurodata/CloudReg/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/neurodata%2FCloudReg/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":262490410,"owners_count":23319286,"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":"2024-11-10T16:27:10.376Z","updated_at":"2025-06-28T20:11:18.104Z","avatar_url":"https://github.com/neurodata.png","language":"MATLAB","funding_links":[],"categories":[],"sub_categories":[],"readme":"# CloudReg\n[![Documentation Status](https://readthedocs.org/projects/cloudreg/badge/?version=latest)](https://cloudreg.readthedocs.io/en/latest/?badge=latest)\n[![License](https://img.shields.io/badge/License-Apache%202.0-blue.svg)](https://opensource.org/licenses/Apache-2.0)\n[![DOI](https://zenodo.org/badge/204720122.svg)](https://zenodo.org/badge/latestdoi/204720122)\n\n## `CloudReg` is a tool for cross-modal, nonlinear, image registration between arbitrary image volumes.\n\n- [Overview](#overview)\n- [Documentation](#documentation)\n- [System Requirements](#system-requirements)\n- [Installation Guide](#installation-guide)\n- [License](#license)\n- [Issues](#issues)\n- [Citing `CloudReg`](#citing-cloudreg)\n\n\n# Overview\nQuantifying terascale multi-modal human and animal imaging data requires scalable analysis tools. We developed CloudReg, an automated, terascale, cloud-based image analysis pipeline for preprocessing and cross-modal, non-linear registration between volumetric datasets with artifacts. CloudReg was developed using cleared mouse and rat brain light-sheet microscopy images, but is also accurate in registering the following datasets to their respective atlases: *in vivo* human and *ex vivo* macaque brain magnetic resonance imaging, *ex vivo* murine brain micro-computed tomography. Our extensive documentation (below) can enable deployment of this tool for many other datasets/research questions.\n\n# Documentation\nThe official documentation with usage is at https://cloudreg.neurodata.io\n\nPlease visit the [Run section](https://cloudreg.neurodata.io/run.html) in the official website for more in depth usage.\n\n# System Requirements\n## Hardware requirements\n`CloudReg` requires only a standard computer with enough RAM to support the in-memory operations since the majority of work is run in cloud services.\n\n## Software requirements\n### OS Requirements\n`CloudReg` is tested on the following OSes and requires Python 3:\n- Linux x64\n- macOS x64\n\n# Installation Guide\nPlease see [Setup](https://cloudreg.neurodata.io/setup.html) on the official website for detailed set up information. \n\n# License\nThis project is covered under the Apache 2.0 License.\n\n# Issues\nWe appreciate detailed bug reports and feature requests (though we appreciate pull requests even more!). Please visit our [issues](https://github.com/neurodata/CloudReg/issues) page if you have questions or ideas.\n\n# Citing `CloudReg`\nIf you find `CloudReg` useful in your work, please cite the tool via the [CloudReg paper](https://www.nature.com/articles/s41592-021-01218-z#citeas)\n\n\u003e Chandrashekhar, V., Tward, D.J., Crowley, D. et al. CloudReg: automatic terabyte-scale cross-modal brain volume registration. Nat Methods (2021). https://doi.org/10.1038/s41592-021-01218-z\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fneurodata%2Fcloudreg","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fneurodata%2Fcloudreg","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fneurodata%2Fcloudreg/lists"}