{"id":20714663,"url":"https://github.com/fabsta/orthoselect","last_synced_at":"2026-04-21T15:02:20.019Z","repository":{"id":142929762,"uuid":"2594824","full_name":"fabsta/OrthoSelect","owner":"fabsta","description":"OrthoSelect: a protocol for selecting orthologous groups in phylogenomics ","archived":false,"fork":false,"pushed_at":"2011-10-17T20:51:44.000Z","size":708,"stargazers_count":1,"open_issues_count":0,"forks_count":0,"subscribers_count":1,"default_branch":"master","last_synced_at":"2025-01-17T21:43:34.758Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"Perl","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/fabsta.png","metadata":{"files":{"readme":"README","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":"2011-10-17T20:51:32.000Z","updated_at":"2014-09-08T23:33:34.000Z","dependencies_parsed_at":"2023-03-15T16:40:53.128Z","dependency_job_id":null,"html_url":"https://github.com/fabsta/OrthoSelect","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/fabsta%2FOrthoSelect","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/fabsta%2FOrthoSelect/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/fabsta%2FOrthoSelect/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/fabsta%2FOrthoSelect/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/fabsta","download_url":"https://codeload.github.com/fabsta/OrthoSelect/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":242988240,"owners_count":20217537,"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":"2024-11-17T02:33:26.626Z","updated_at":"2026-04-21T15:02:19.974Z","avatar_url":"https://github.com/fabsta.png","language":"Perl","funding_links":[],"categories":[],"sub_categories":[],"readme":"README for OrthoSelect\n--------------------------\n\nTest data\n--------------------------------------------------------------------------------------------------------\nThe directory \"project1\" contains a test run using publicly available ESTs.\n\n\nThe following executable have to be in your path so that OrthoSelect can correctly work:\n--------------------------------------------------------------------------------------------------------\n\tblastall\n\thmmbuild\n\thmmsearch\n\tgenewise\n\tESTScan\n\tmuscle\n\twget (optional)\n\tnoisy (optional)\n\tt_coffee\n\tmuscle\n\nThe following Environmental variables have to be set:\n------------------------------------------------------------------------------\n\tWISECONFIGDIR\n\tESTSCANDIR\n\nThe following ESTScan matrices will be used (put them in the ESTSCANDIR)\n------------------------------------------------------------------------------\n\tAt.smat\n\tDm.smat\n\tDr.smat\n\tHs.smat\n\tMm.smat\n\tRn.smat\n\n\nThe archive includes these files:\n----------------------------------------------------\n\tREADME\n\tINSTALL\n        perl_scripts/auto_download.pl\n\tperl_scripts/create_taxa_file.pl\n\tperl_scripts/gene_selection.pl\n\tdb/\n\tlib/\n\tlib/Blaststuff.pm\n\tlib/Iostuff.pm\n\toptions.txt\n\tperl_scripts/\n\tperl_scripts/post_processing.pl\n\tperl_scripts/prepare_analysis.pl\n\tperl_scripts/select_best_ortholog.pl\n\tperl_scripts/start_blasto_nucleotide.pl\n\tperl_scripts/start_filter_redundant_cluster.pl\n\tperl_scripts/start_filter_redundant_single.pl\n\tperl_scripts/start_orthology_assignment_cluster.pl\n\tperl_scripts/start_orthology_assignment_single.pl\n\tperl_scripts/stats.pl\n\test_libraries/\n\tUser_guide.pdf\n\t\n\nThe documentation is available as a pdf document:\n------------------------------------------------------------------------------\n\tUser_guide.pdf\n\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Ffabsta%2Forthoselect","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Ffabsta%2Forthoselect","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Ffabsta%2Forthoselect/lists"}