{"id":28709692,"url":"https://github.com/imagingdatacommons/conversion_mirax_dicom","last_synced_at":"2025-06-14T20:18:24.704Z","repository":{"id":296865228,"uuid":"906249122","full_name":"ImagingDataCommons/conversion_mirax_dicom","owner":"ImagingDataCommons","description":"Code for the conversion of BMDeep dataset in MRXS format to DICOM format","archived":false,"fork":false,"pushed_at":"2025-06-02T15:11:25.000Z","size":307,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":8,"default_branch":"main","last_synced_at":"2025-06-03T02:43:20.686Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"bsd-3-clause","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/ImagingDataCommons.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":"2024-12-20T13:31:30.000Z","updated_at":"2025-06-02T15:11:28.000Z","dependencies_parsed_at":"2025-06-03T02:54:59.576Z","dependency_job_id":null,"html_url":"https://github.com/ImagingDataCommons/conversion_mirax_dicom","commit_stats":null,"previous_names":["imagingdatacommons/conversion_mirax_dicom"],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/ImagingDataCommons/conversion_mirax_dicom","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ImagingDataCommons%2Fconversion_mirax_dicom","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ImagingDataCommons%2Fconversion_mirax_dicom/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ImagingDataCommons%2Fconversion_mirax_dicom/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ImagingDataCommons%2Fconversion_mirax_dicom/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/ImagingDataCommons","download_url":"https://codeload.github.com/ImagingDataCommons/conversion_mirax_dicom/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ImagingDataCommons%2Fconversion_mirax_dicom/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":259877576,"owners_count":22925408,"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":"2025-06-14T20:18:19.351Z","updated_at":"2025-06-14T20:18:24.691Z","avatar_url":"https://github.com/ImagingDataCommons.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"# BoneMarrowWSI-PediatricLeukemia dataset conversion\n**--- This repository is still work in progress ---**\n\nThis repository contains the code that was used for the conversion of the [BoneMarrowWSI-PediatricLeukemia](https://doi.org/10.5281/zenodo.14933088) (aka BMDeep) dataset into DICOM format for ingestion into IDC. \n\nThis repository includes:  \n1) code for image conversion from MRXS to DICOM.\n2) code for annotation conversion from CSV to DICOM.\n\nBoth are implemented to be run on a local machine, while retrieving actual data and returning converted results from/to a mounted server called Gaia.\n\n## Requirements\n- see requirements.txt \n- for running the verification scripts: installation of dicom3tools required \n    1. wget https://dclunie.com/dicom3tools/workinprogress/dicom3tools_1.00.snapshot.20250128115421.tar.bz2\n    2. bzcat \u003cdicom3tools_1.00.snapshot.20250128115421.tar.bz2 | tar -xf -\n    3. mv dicom3tools_1.00.snapshot.20250128115421 dicom3tools\n    4. sudo apt-get install xutils-dev\n    5. cd dicom3tools \u0026\u0026 ./Configure \u0026\u0026 imake -I./config -DInstallInTopDir \u0026\u0026 make World \u0026\u0026 make install\n\n## Documentation\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fimagingdatacommons%2Fconversion_mirax_dicom","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fimagingdatacommons%2Fconversion_mirax_dicom","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fimagingdatacommons%2Fconversion_mirax_dicom/lists"}