genotations 0.1.1

Genotations - python library to work with genomes and primers

Genotations

Python library to work with genomes and annotations, mostly Ensembl genomes. Also supports visualization of transcripts/gene features and primer selection.

Usage

Install with pip:

pip install genotations

The library allows:

• downloading Ensembl annotations and genomes (uses genomepy under the hood)
• working with genomic annotations like with polars dataframes
• getting sequences for selected genes
• visualizing the genes features
• designing primers for selected transcripts with Primer3 python wrapper

Please, check example notebook to see the usage and API

Working with code

Use micromamba (or conda) and environment.yaml to install the dependencies

micromamba create -f environment.yaml