download-giab 0.2.0

Utility Python package to download Genome-in-a-Bottle data from their index files.

download_giab

Utility Python package to download Genome-in-a-Bottle data from their index files.

This requires Python 3.6 or later.

To install, run the following:

pip install download_giab

If you're installing on a cluster, this might be more like:

pip install --user download_giab

To use, run something like the following:

download_giab https://raw.githubusercontent.com/genome-in-a-bottle/giab_data_indexes/master/AshkenazimTrio/sequence.index.AJtrio_Illumina300X_wgs_07292015.HG002

This will download everything in the linked index to the directory the utility is run from. It can also download from local index files.

If you want to download lots of data and not have the program hang up upon session disconnect, you can use nohup and &:

nohup download_giab https://raw.githubusercontent.com/genome-in-a-bottle/giab_data_indexes/master/AshkenazimTrio/sequence.index.AJtrio_Illumina300X_wgs_07292015.HG002 &