Bioconductor vs PyPI
Bioconductor
bioconductor.orgPyPI
pypi.orgSide by side
| Figure | Bioconductor | PyPI |
|---|---|---|
| Price from | Free | $5/mo |
| Free plan | Yes | Yes |
| Free trial | — | — |
| Open source | Yes | Yes |
| Web | Yes | Yes |
| Windows | Yes | Yes |
| macOS | Yes | Yes |
| Linux | Yes | Yes |
| API | — | Yes |
| Self-hosted | Yes | Yes |
| Plans published | 2 | 4 |
| Spec score · Package Registries | 9.1 (#1) | 8.8 (#6) |
| Founded | 2001 | LinkedIn lists the Python Software Foundation as founded in 2001. |
| Installation | The recommended installer is BiocManager, which selects repositories matching the installed R and Bioconductor versions. | The Python Packaging User Guide documents installing PyPI packages with Python and pip on Unix/macOS and Windows. |
| Licence | Core Bioconductor packages are typically licensed under Artistic-2.0, while individual packages may use other open-source licences. | Warehouse, the software powering PyPI, is published under the Apache-2.0 licence. |
| Purpose | Bioconductor develops and shares open-source software for rigorous, reproducible analysis of biological data. | PyPI is a repository of software for the Python programming language. |
| Rating on G2 | 0 out of 5 from 0 reviews; G2 reports zero ratings and insufficient review data for Bioconductor. | 4.4 out of 5 stars from 12 reviews. |
| Self-hosting | The Docker images can run RStudio Server, command-line R or a shell locally and support mounted host volumes. | The Warehouse codebase that powers PyPI can be run locally with Docker for development and testing. |
| What it does | Bioconductor develops open-source software for precise, repeatable analysis of biological data. | PyPI is a repository where Python software is published, discovered, downloaded, and installed. |
Plans
PyPI
- Community organizationFree
- Community OrganizationFree
- Company organization$5 a month
- Corporate Organization$5 a month
In their own words
Bioconductor
Bioconductor develops and shares free, open-source software for rigorous and reproducible analysis of biological data. It serves researchers and data scientists working with biological and genomic datasets. The project uses R, with most components distributed as R packages. Those packages support analysis of DNA microarray, sequence, flow, SNP, and other genetic or genomic data. Tools can associate genomic data with biological metadata from sources such as GenBank, Entrez genes, and PubMed. Each package includes one or more task-oriented vignettes, and reproducible research is a stated project goal. Bioconductor maintains a stable release updated twice a year and a development version for new features and packages. Each release is designed for a specific R version; the current release page lists Bioconductor 3.23 with R 4.6.0. Docker containers with preinstalled R and Bioconductor versions support reproducible environments. The project documents container deployment with Amazon ECS, Google Kubernetes Engine, Microsoft Azure Container Instances, and Docker Desktop or Docker Engine. Help is available through its Support site and community chat. The project began in 2001 and is overseen by a core team.
PyPI
PyPI is a repository for software written in Python, available through its website and APIs. It helps users find and install packages shared by the Python community, while package authors publish projects and releases. A release may include source archives and binary wheels for different hardware, operating systems, and formats. APIs include RSS feeds for new packages and releases. PyPI is maintained by the Python Software Foundation and the Python community. Accounts require two-factor authentication, and a verified email address is needed to register a project or upload a release file. Trusted Publishing uses OpenID Connect short-lived identity tokens, with PyPI API tokens valid for 15 minutes. Default limits are 100 MB per file and 10 GB per project. Organizations provide shared profiles, teams, permissions, trusted publishing, and history. Community organizations are free; Company organizations cost $5 a month.