{"id":22188426,"url":"https://github.com/vmikk/vmikk","last_synced_at":"2026-02-03T20:04:28.722Z","repository":{"id":244931489,"uuid":"816749695","full_name":"vmikk/vmikk","owner":"vmikk","description":"Profile","archived":false,"fork":false,"pushed_at":"2025-02-12T19:37:38.000Z","size":5,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":1,"default_branch":"main","last_synced_at":"2025-07-14T04:42:11.793Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":null,"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/vmikk.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,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2024-06-18T10:32:33.000Z","updated_at":"2025-02-12T19:37:42.000Z","dependencies_parsed_at":"2025-06-24T00:41:49.476Z","dependency_job_id":null,"html_url":"https://github.com/vmikk/vmikk","commit_stats":null,"previous_names":["vmikk/vmikk"],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/vmikk/vmikk","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vmikk%2Fvmikk","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vmikk%2Fvmikk/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vmikk%2Fvmikk/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vmikk%2Fvmikk/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/vmikk","download_url":"https://codeload.github.com/vmikk/vmikk/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vmikk%2Fvmikk/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":29055630,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-02-03T15:43:47.601Z","status":"ssl_error","status_checked_at":"2026-02-03T15:43:46.709Z","response_time":96,"last_error":"SSL_read: unexpected eof while reading","robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":false,"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":"2024-12-02T11:10:28.160Z","updated_at":"2026-02-03T20:04:28.706Z","avatar_url":"https://github.com/vmikk.png","language":null,"funding_links":[],"categories":[],"sub_categories":[],"readme":"### 👋 Hi, I'm Vladimir Mikryukov\n\n🧬 🍄 🌍 I'm a molecular ecologist passionate about biodiversity, metagenomics and ecological statistics.  \nI work as a Research Fellow at the Institute of Ecology and Earth Sciences at the University of Tartu.\n\n#### Main programs\n\n- [NextITS](https://github.com/vmikk/NextITS) [Nextflow, R, bash] - A pipeline for metabarcoding eukaryotes with full-length ITS sequenced with PacBio \n- [PhyloNext](https://github.com/vmikk/PhyloNext) [Nextflow, R, Python] - A pipeline for phylogenetic diversity analysis of GBIF-mediated data and Open Tree of Life synthetic phylogenies\n- [phredsort](https://github.com/vmikk/phredsort) [Go] - A cli tool for sorting sequences in a FASTQ file by their quality scores\n- [SeqHasher](https://github.com/vmikk/SeqHasher) [Go] - A tool for hashing individual sequences in FASTA files \n- [symlink2file](https://github.com/vmikk/symlink2file) [Go] - A tool to replace symlinked files with their original files \n- [tshbot](https://github.com/vmikk/tshbot) [Go] - Program for executing shell commands via Telegram \n- [goclust](https://github.com/vmikk/goclust) [Go] - Clustering tool for sparse matrices produced by USEARCH \n- [ucs](https://github.com/vmikk/ucs) [Go] - UC file proccessing tool (USEARCH/VSEARCH/SWARM cluster format) \n- [BatchBlaster](https://github.com/vmikk/BatchBlaster) [Nextflow] - A Nextflow-based pipeline for taxonomic classification (currently with BLAST) \n- [metagMisc](https://github.com/vmikk/metagMisc) [R] - Miscellaneous functions for metagenomic analysis\n- [SHMatcher](https://github.com/vmikk/SHMatcher) [Nextflow, Python] - Species hypothesis (SH) matching analysis tool \n- [phylonest](https://github.com/vmikk/phylonest) [R] - Equivalent numbers for species, phylogenetic or functional diversity in a nested hierarchy of multiple scales \n- [nex2tbl](https://github.com/Mycology-Microbiology-Center/nex2tbl) [R] - Preparation of protein-coding DNA sequences for the submission to GenBank\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fvmikk%2Fvmikk","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fvmikk%2Fvmikk","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fvmikk%2Fvmikk/lists"}