Description
Access Data Dependencies Installed Through 'Biobricks.ai'.
Description
Provides an integrated data management solution for assets installed via the 'Biobricks.ai' platform. Streamlines the process of loading and interacting with diverse datasets in a consistent manner. A list of bricks is available at <https://status.biobricks.ai>. Documentation for 'Biobricks.ai' is available at <https://docs.biobricks.ai>.
README.md
Here's a revised README that should offer a clearer and more direct explanation of your package and its functionality.
Biobricks R Package
The biobricks R package facilitates the management and use of bioinformatics databases, streamlining access to a range of datasets.
Installation
Step 1: Install the Python Package
pip install biobricks
Step 2: Install the R Package
install.packages('biobricks')
Quickstart
Setup the Command Line Tool
pip install biobricks
biobricks configure # Set the BBLIB path and obtain a token
biobricks install clinvar # Install a database of your choice
Install a Bioinformatics Database (Brick)
For example, to install the ClinVar database:
biobricks install clinvar
Asset Overview
To list the assets provided by a brick:
biobricks assets clinvar
Using ClinVar Assets in R
Load ClinVar assets, which are stored as Parquet files:
clinvar <- biobricks::bbassets('clinvar')
arrowds <- arrow::open_dataset(clinvar$allele_gene_parquet)
head(arrowds) %>% dplyr::collect()
Additional Documentation
For more details, visit docs.biobricks.ai.
Hope this suits your needs.