{"id":24143821,"url":"https://github.com/dnbaker/minicore-experiments","last_synced_at":"2025-09-06T10:33:48.687Z","repository":{"id":46804138,"uuid":"314382858","full_name":"dnbaker/minicore-experiments","owner":"dnbaker","description":"Experiments for minicore: fast scRNA-seq clustering with various distances","archived":false,"fork":false,"pushed_at":"2021-09-26T19:30:24.000Z","size":1685,"stargazers_count":1,"open_issues_count":0,"forks_count":0,"subscribers_count":2,"default_branch":"release","last_synced_at":"2025-03-01T14:32:56.236Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"","language":"Python","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/dnbaker.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}},"created_at":"2020-11-19T22:16:09.000Z","updated_at":"2021-10-24T22:41:59.000Z","dependencies_parsed_at":"2022-09-23T04:31:55.285Z","dependency_job_id":null,"html_url":"https://github.com/dnbaker/minicore-experiments","commit_stats":null,"previous_names":[],"tags_count":1,"template":false,"template_full_name":null,"purl":"pkg:github/dnbaker/minicore-experiments","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dnbaker%2Fminicore-experiments","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dnbaker%2Fminicore-experiments/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dnbaker%2Fminicore-experiments/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dnbaker%2Fminicore-experiments/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/dnbaker","download_url":"https://codeload.github.com/dnbaker/minicore-experiments/tar.gz/refs/heads/release","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dnbaker%2Fminicore-experiments/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273892816,"owners_count":25186560,"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","status":"online","status_checked_at":"2025-09-06T02:00:13.247Z","response_time":2576,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"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":"2025-01-12T05:45:39.025Z","updated_at":"2025-09-06T10:33:48.660Z","avatar_url":"https://github.com/dnbaker.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"This repository contains experiments for `minicore: Fast scRNA-seq clustering with various distances`.\n\n\n\n### Dependencies\n1. sklearn\n2. numpy\n3. scipy\n4. minicore v0.3\n\n### Installing minicore\nTo install minicore's Python bindings, clone [minicore recursively](https://github.com/dnbaker/minicore), change into the Python directory and run `python3 setup.py install`.\nAlternatively, a single-command install would be `python3 -m pip install git+git://github.com/dnbaker/minicore@main`. Please create an issue if you encounter any difficulties.\n\nBecause compilation can be somewhat slow, the build is parallelized by default with `$OMP_NUM_THREADS` threads. Run your command as `OMP_NUM_THREADS=number python3 setup.py install` to use `number` threads.\n\n\n### Setting up data\n\nData can be downloaded in compressed CSR-format [here](https://doi.org/10.5281/zenodo.4738365).\nFor simplicity, simply run this [download script](https://raw.githubusercontent.com/dnbaker/minicore-experiments/release/download.sh),\nwhich will download and decompress the tarballs necessary.\nIt will prompt you to append `MINICORE_DATA` to your .bashrc; if you choose not to, you simply need to export `export MINICORE_DATA=${PATH}` to the path where you downloaded minicore\\_data. Then you should be able to perform these experiments.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdnbaker%2Fminicore-experiments","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fdnbaker%2Fminicore-experiments","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdnbaker%2Fminicore-experiments/lists"}