https://github.com/dogsheep/genome-to-sqlite

Import your genome into a SQLite database
https://github.com/dogsheep/genome-to-sqlite

23andme datasette datasette-io datasette-tool dogsheep genetics personal-analytics sqlite

Last synced: about 1 month ago
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Import your genome into a SQLite database

• Host: GitHub
• URL: https://github.com/dogsheep/genome-to-sqlite
• Owner: dogsheep
• License: apache-2.0
• Created: 2019-09-19T15:38:39.000Z (about 5 years ago)
• Default Branch: master
• Last Pushed: 2019-09-19T15:41:17.000Z (about 5 years ago)
• Last Synced: 2024-05-01T23:17:13.365Z (7 months ago)
• Topics: 23andme, datasette, datasette-io, datasette-tool, dogsheep, genetics, personal-analytics, sqlite
• Language: Python
• Homepage:
• Size: 8.79 KB
• Stars: 20
• Watchers: 4
• Forks: 1
• Open Issues: 2
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
# genome-to-sqlite

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Import your genome into a SQLite database.

## How to install

    $ pip install genome-to-sqlite

## How to use

First, export your genome. This tool has only been tested against 23andMe so far. You can request an export of your genome from https://you.23andme.com/tools/data/download/

Now you can convert the resulting `export.zip` file to SQLite like so:

    $ genome-to-sqlite export.zip genome.db

A progress bar will be displayed. You can disable this using `--silent`.

```

Importing genome  [#----------------]    5%  00:01:33

```

You can explore the resulting data using [Datasette](https://datasette.readthedocs.io/) like this:

    $ datasette genome.db --config facet_time_limit_ms:1000

Bumping up the facet time limit is useful in order to enable faceting by chromosome:

http://127.0.0.1:8001/genome/genome?_facet=chromosome&_sort=position