{"id":26600820,"url":"https://github.com/quinlan-lab/strling","last_synced_at":"2025-04-09T16:24:22.030Z","repository":{"id":35513396,"uuid":"196054841","full_name":"quinlan-lab/STRling","owner":"quinlan-lab","description":"Detect novel (and reference) STR expansions from short-read data","archived":false,"fork":false,"pushed_at":"2023-08-07T01:20:55.000Z","size":426,"stargazers_count":58,"open_issues_count":21,"forks_count":9,"subscribers_count":7,"default_branch":"master","last_synced_at":"2024-05-01T22:46:40.009Z","etag":null,"topics":["hacktoberfest","nim-lang","short-tandem-repeats","str","whole-genome-sequencing"],"latest_commit_sha":null,"homepage":"","language":"Nim","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/quinlan-lab.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}},"created_at":"2019-07-09T17:36:04.000Z","updated_at":"2024-04-28T10:16:11.000Z","dependencies_parsed_at":"2023-01-15T22:45:16.175Z","dependency_job_id":null,"html_url":"https://github.com/quinlan-lab/STRling","commit_stats":null,"previous_names":[],"tags_count":12,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/quinlan-lab%2FSTRling","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/quinlan-lab%2FSTRling/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/quinlan-lab%2FSTRling/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/quinlan-lab%2FSTRling/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/quinlan-lab","download_url":"https://codeload.github.com/quinlan-lab/STRling/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":245152096,"owners_count":20569374,"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":["hacktoberfest","nim-lang","short-tandem-repeats","str","whole-genome-sequencing"],"created_at":"2025-03-23T18:35:35.140Z","updated_at":"2025-03-23T18:35:35.793Z","avatar_url":"https://github.com/quinlan-lab.png","language":"Nim","funding_links":[],"categories":[],"sub_categories":[],"readme":"![STRling logo](docs/strling-logo-webres.png)\n\n[![Build Status](https://travis-ci.com/quinlan-lab/STRling.svg?branch=master)](https://travis-ci.com/quinlan-lab/STRling)\n[![Documentation Status](https://readthedocs.org/projects/strling/badge/?version=latest)](https://strling.readthedocs.io/en/latest/?badge=latest)\n[![License](https://img.shields.io/badge/license-MIT-blue.svg)](https://opensource.org/licenses/MIT)\n\n__[STRling Documentation](https://strling.readthedocs.io/en/latest/)__\n\nSTRling (pronounced like “sterling”) is a method to detect large STR expansions from short-read sequencing data. It is capable of detecting novel STR expansions, that is expansions where there is no STR in the reference genome at that position (or a different repeat unit from what is in the reference). It can also detect STR expansions that are annotated in the reference genome. STRling uses kmer counting to recover mis-mapped STR reads. It then uses soft-clipped reads to precisely discover the position of the STR expansion in the reference genome.\n\n## Install and Run STRling\n\nPlease see the [STRling Documentation](https://strling.readthedocs.io/en/latest/) for installation and running instructions.\n\n## Citation\n\nFor more details able the algorithm check out our paper.\n\nIf using STRling, please cite: \n\nDashnow, H., Pedersen, B.S., Hiatt, L. et al. STRling: a k-mer counting approach that detects short tandem repeat expansions at known and novel loci. Genome Biol 23, 257 (2022). \u003chttps://doi.org/10.1186/s13059-022-02826-4\u003e\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fquinlan-lab%2Fstrling","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fquinlan-lab%2Fstrling","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fquinlan-lab%2Fstrling/lists"}