The pharmbio Python package serves as a toolkit developed for the Pharmaceutical Bioinformatics Research Group at Uppsala University, Sweden.
For more info: - See Pharmbio research group website - See the package documentation
Server Connection Dependency and Usage Constraints
Please note that the
pharmbiopackage is tightly integrated with the data server and file repository infrastructure of the Pharmaceutical Bioinformatics Research Group at Uppsala University. As such, it is not designed to function outside of this specific server workflow. The package is optimized for use within the group's ecosystem and its full range of functionalities are only accessible when connected to the group's server environment. Users should deploy and utilizepharmbiowith this critical dependency in mind.
This package is engineered to enhance research workflows by offering a robust set of tools for data processing, quality control, and visualization. Specifically tailored for projects within the lab, the package facilitates seamless interactions with the group's data server and file repository. It specializes in handling 'cell painting' data, including both image and tabular formats, offering features from quality control on cellular images to in-depth analysis of cell phenotypes and chemical compound metadata. By streamlining various lab tasks, pharmbio aims to set a standard, easy-to-implement workflow for all experiments run within the research group.
The pharmbio package is modular and designed for extensibility, making it well-suited for meeting the evolving needs of the research group. It incorporates state-of-the-art libraries and technologies to ensure efficiency.
The pharmbio package is available on PyPI and can be easily installed using pip:
pip install pharmbioTo update the package to the latest version, use:
pip install -U pharmbioAlternatively, you can install the package directly from our GitHub repository:
pip install git+https://github.com/pharmbio/pharmbio_package.git