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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.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.