{"categories":[{"label":"Information Analysis","url":"https://skillfed.io/packages/category/scientific-engineering-information-analysis"}],"enrichment":{"capability":"A command-line toolkit that simplifies common bioinformatics tasks like fetching sequences, converting formats, aligning genomes, and querying taxonomic data through composable commands.","skillfed_tags":["bioinformatics","cli-tool","genomics"],"use_cases":["Fetch viral or bacterial genome sequences by accession number and convert them to FASTA or GFF format for downstream analysis.","Extract and align coding sequences for a specific gene across multiple genomes, then generate variant calls in VCF format.","Query taxonomic lineages and descendants for a given taxon ID to understand evolutionary relationships.","Teach bioinformatics concepts in a classroom setting using readable, composable commands rather than complex scripting.","Investigate precise details of a genomic region by combining fetch, format conversion, and alignment in a single pipeline."],"what_it_does":"bio is a command-line toolkit designed to reduce the friction of routine bioinformatics tasks. It wraps common operations\u2014fetching sequences from GenBank, converting between FASTA/GFF/VCF formats, aligning sequences, and querying taxonomic lineages\u2014into short, composable commands that can be chained together using Unix pipes. The package is built on biopython, mygene, gprofiler-official, and other established bioinformatics libraries, and is oriented toward stream processing so that output from one command naturally feeds into the next.\n\nThe project is in active beta and targets students, educators, and researchers working with similar genomes (bacterial or viral strains) or investigating specific genomic regions. It aims to replace multi-step workflows and arcane command sequences with explicit, readable commands. The toolkit is maintained actively and supports Python 3.10 through 3.12.","worth_installing":"Yes, if you work with genomic data and want to reduce command-line friction. The package is actively maintained, has no known vulnerabilities, uses a permissive MIT license, and depends on stable bioinformatics libraries. It is explicitly designed for learning and exploration, so it suits educational and investigative use well. Consider whether its command set covers your specific workflows before committing to it as a primary tool."},"id":"bio","links":{"html":"https://skillfed.io/packages/bio","md":"https://skillfed.io/packages/bio.md","pypi":"https://pypi.org/project/bio/"},"maintenance":{"status":"active"},"meta":{"latest_release":"2026-05-11","license_spdx":"MIT","license_treatment":"permissive","name":"bio","python_support":"supports_current","summary":null},"popularity":{"monthly_downloads":1391453,"position":3963,"tier":"top_5000"},"security":{"n_vulnerabilities":0},"version":"1.8.3"}