{"id":18117,"name":"stitch","description":"Template-based assembly of proteomics short reads for de novo antibody sequencing and repertoire profiling","url":"https://github.com/snijderlab/stitch","last_synced_at":"2025-09-04T23:48:17.185Z","repository":{"id":58942577,"uuid":"433791646","full_name":"snijderlab/stitch","owner":"snijderlab","description":"Template-based assembly of proteomics short reads for de novo antibody sequencing and repertoire profiling","archived":false,"fork":false,"pushed_at":"2024-10-15T11:26:17.000Z","size":86261,"stargazers_count":25,"open_issues_count":24,"forks_count":3,"subscribers_count":1,"default_branch":"master","last_synced_at":"2025-08-24T21:29:30.311Z","etag":null,"topics":["antibody","mass-spectrometry","sequencing"],"latest_commit_sha":null,"homepage":"","language":"C#","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"mit","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/snijderlab.png","metadata":{"files":{"readme":"README.md","changelog":"CHANGELOG.md","contributing":null,"funding":null,"license":"LICENSE.md","code_of_conduct":null,"threat_model":null,"audit":null,"citation":"CITATION.cff","codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2021-12-01T11:02:27.000Z","updated_at":"2025-06-03T01:33:49.000Z","dependencies_parsed_at":"2023-02-18T08:01:14.568Z","dependency_job_id":"748389b4-66e0-4055-82e2-c6dccde420c3","html_url":"https://github.com/snijderlab/stitch","commit_stats":null,"previous_names":[],"tags_count":15,"template":false,"template_full_name":null,"purl":"pkg:github/snijderlab/stitch","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/snijderlab%2Fstitch","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/snijderlab%2Fstitch/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/snijderlab%2Fstitch/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/snijderlab%2Fstitch/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/snijderlab","download_url":"https://codeload.github.com/snijderlab/stitch/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/snijderlab%2Fstitch/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273690341,"owners_count":25150630,"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":"2025-09-04T02:00:08.968Z","response_time":61,"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"}},"owner":{"login":"snijderlab","name":"snijderlab","uuid":"95350222","kind":"organization","description":"Research lab under @joostsnijder at the @UtrechtUniversity.","email":null,"website":null,"location":"Netherlands","twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/95350222?v=4","repositories_count":3,"last_synced_at":"2023-05-03T19:43:19.078Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/snijderlab","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2023-05-03T19:43:19.085Z","updated_at":"2023-05-03T19:43:19.085Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/snijderlab","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/snijderlab/repositories"},"packages":[],"commits":{"id":8639135,"full_name":"snijderlab/stitch","default_branch":"master","committers":null,"total_commits":null,"total_committers":null,"total_bot_commits":null,"total_bot_committers":null,"mean_commits":null,"dds":null,"past_year_committers":null,"past_year_total_commits":null,"past_year_total_committers":null,"past_year_total_bot_commits":null,"past_year_total_bot_committers":null,"past_year_mean_commits":null,"past_year_dds":null,"last_synced_at":null,"last_synced_commit":null,"created_at":"2025-02-06T23:28:34.643Z","updated_at":"2025-02-06T23:28:34.643Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/snijderlab%2Fstitch/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-04T00:00:25.936Z","repositories_count":5480019,"commits_count":853389012,"contributors_count":31098138,"owners_count":906558,"icon_url":"https://github.com/github.png","host_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories"}},"issues_stats":{"full_name":"snijderlab/stitch","html_url":"https://github.com/snijderlab/stitch","last_synced_at":"2025-08-31T08:37:05.853Z","status":null,"issues_count":100,"pull_requests_count":2,"avg_time_to_close_issue":8454770.210526315,"avg_time_to_close_pull_request":12.5,"issues_closed_count":76,"pull_requests_closed_count":2,"pull_request_authors_count":1,"issue_authors_count":15,"avg_comments_per_issue":2.4,"avg_comments_per_pull_request":0.0,"merged_pull_requests_count":2,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":10,"past_year_pull_requests_count":0,"past_year_avg_time_to_close_issue":767140.0,"past_year_avg_time_to_close_pull_request":null,"past_year_issues_closed_count":4,"past_year_pull_requests_closed_count":0,"past_year_pull_request_authors_count":0,"past_year_issue_authors_count":5,"past_year_avg_comments_per_issue":1.7,"past_year_avg_comments_per_pull_request":null,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":0,"created_at":"2025-02-06T23:28:34.881Z","updated_at":"2025-09-03T06:24:08.128Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/snijderlab%2Fstitch","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/snijderlab%2Fstitch/issues","issue_labels_count":{"C-enhancement":26,"A-html-report":25,"M-user-question":12,"M-possible-scoring-change":12,"A-batchfile":10,"C-bug":8,"M-unrefined-idea":8,"M-needs-investigation":5,"A-ms":3,"M-wild-idea":3,"A-alignment":2,"A-templates-generation":2,"M-priority":2,"A-structural":2,"K-refactor":2,"C-crash":1,"A-github-actions":1,"A-phylogenetic-tree":1},"pull_request_labels_count":{},"issue_author_associations_count":{"MEMBER":69,"NONE":30},"pull_request_author_associations_count":{"MEMBER":2},"issue_authors":{"douweschulte":69,"irleader":7,"kostrouc":5,"biocc":3,"Ln9052":2,"MengTingHe2023":2,"wenjinwu1985":2,"avilella":2,"oatmealcookie8":1,"huangli1219":1,"sbeausol":1,"kkim89":1,"huyoyo2001":1,"pikiton":1,"JoergDoellinger":1},"pull_request_authors":{"douweschulte":2},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-04T00:00:25.939Z","repositories_count":10082405,"issues_count":31230170,"pull_requests_count":96100294,"authors_count":10694153,"icon_url":"https://github.com/github.png","host_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories","owners_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/owners","authors_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors"},"past_year_issue_labels_count":{"M-user-question":1},"past_year_pull_request_labels_count":{},"past_year_issue_author_associations_count":{"NONE":10},"past_year_pull_request_author_associations_count":{},"past_year_issue_authors":{"irleader":6,"JoergDoellinger":1,"kkim89":1,"oatmealcookie8":1,"sbeausol":1},"past_year_pull_request_authors":{},"maintainers":[{"login":"douweschulte","count":71,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/douweschulte"}],"active_maintainers":[]},"events":{"total":{"IssuesEvent":16,"WatchEvent":3,"IssueCommentEvent":18},"last_year":{"IssuesEvent":16,"WatchEvent":3,"IssueCommentEvent":18}},"keywords":["antibody","mass-spectrometry","sequencing"],"dependencies":[{"ecosystem":"actions","filepath":".github/workflows/benchmark.yml","sha":null,"kind":"manifest","created_at":"2023-02-18T08:01:13.709Z","updated_at":"2023-02-18T08:01:13.709Z","repository_link":"https://github.com/snijderlab/stitch/blob/master/.github/workflows/benchmark.yml","dependencies":[{"id":7757083670,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":7757083671,"package_name":"actions/setup-dotnet","ecosystem":"actions","requirements":"v3","direct":true,"kind":"composite","optional":false},{"id":7757083672,"package_name":"benchmark-action/github-action-benchmark","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/check.yml","sha":null,"kind":"manifest","created_at":"2023-02-18T08:01:13.786Z","updated_at":"2023-02-18T08:01:13.786Z","repository_link":"https://github.com/snijderlab/stitch/blob/master/.github/workflows/check.yml","dependencies":[{"id":7757084196,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":7757084197,"package_name":"actions/setup-dotnet","ecosystem":"actions","requirements":"v3","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/deploy.yml","sha":null,"kind":"manifest","created_at":"2023-02-18T08:01:13.888Z","updated_at":"2023-02-18T08:01:13.888Z","repository_link":"https://github.com/snijderlab/stitch/blob/master/.github/workflows/deploy.yml","dependencies":[{"id":7757084431,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":7757084432,"package_name":"actions/setup-dotnet","ecosystem":"actions","requirements":"v3","direct":true,"kind":"composite","optional":false},{"id":7757084433,"package_name":"docker://pandoc/latex","ecosystem":"actions","requirements":"2.9","direct":true,"kind":"composite","optional":false},{"id":7757084436,"package_name":"actions/upload-artifact","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"nuget","filepath":"stitch/stitch.csproj","sha":null,"kind":"manifest","created_at":"2023-02-18T08:01:13.946Z","updated_at":"2023-02-18T08:01:13.946Z","repository_link":"https://github.com/snijderlab/stitch/blob/master/stitch/stitch.csproj","dependencies":[{"id":7757084819,"package_name":"hecklib.core","ecosystem":"nuget","requirements":"2.5.*","direct":true,"kind":"runtime","optional":false},{"id":7757084820,"package_name":"hecklib.rawfiles.mgf","ecosystem":"nuget","requirements":"6.0.*","direct":true,"kind":"runtime","optional":false},{"id":7757084821,"package_name":"hecklib.html_generator","ecosystem":"nuget","requirements":"0.0.14","direct":true,"kind":"runtime","optional":false}]},{"ecosystem":"nuget","filepath":"tests/tests.csproj","sha":null,"kind":"manifest","created_at":"2023-02-18T08:01:14.025Z","updated_at":"2023-02-18T08:01:14.025Z","repository_link":"https://github.com/snijderlab/stitch/blob/master/tests/tests.csproj","dependencies":[{"id":7757087436,"package_name":"Microsoft.NET.Test.Sdk","ecosystem":"nuget","requirements":"16.2.0","direct":true,"kind":"runtime","optional":false},{"id":7757087439,"package_name":"MSTest.TestAdapter","ecosystem":"nuget","requirements":"1.4.0","direct":true,"kind":"runtime","optional":false},{"id":7757087451,"package_name":"MSTest.TestFramework","ecosystem":"nuget","requirements":"1.4.0","direct":true,"kind":"runtime","optional":false},{"id":7757087453,"package_name":"coverlet.collector","ecosystem":"nuget","requirements":"1.0.1","direct":true,"kind":"runtime","optional":false}]}],"score":null,"created_at":"2025-09-04T15:50:49.325Z","updated_at":"2025-10-07T08:09:16.160Z","avatar_url":"https://github.com/snijderlab.png","language":"C#","category":null,"sub_category":null,"monthly_downloads":0,"funding_links":[],"readme_doi_urls":[],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":[],"project_url":"https://science.ecosyste.ms/api/v1/projects/18117","html_url":"https://science.ecosyste.ms/projects/18117"}