Downloading the data

Note

Notebooks:

To download the data, execute the Download notebook (notebooks related to the text will be shown on the top of each chapter). Note that this will get approximately 50 GB of data. You will need sufficient disk space and and good internet connection.

The data will be stored in the raw directory along the notebooks directory.

Open a shell and have a look at the vcf file, use a tool like zless as the file is compressed. Do not uncompress it.

We download:

  • A VCF file with the complete 3L chromosome.
  • The index for the VCF file
  • A small subset of the same VCF file using tabix. Note that partial

downloads of VCF files are possible * An equivalent HDF5 file

Indexing

Talk about indexing the partial file.

HDF5 files

vitables