Welcome to the Centre for Population Genomics! We're glad to have you here :)
This repository contains documentation you might find useful as you onboard, but and as an ongoing reference. We sometimes let these docs fall out of date, so please have a chat on Slack if something seems unclear - or open a pull request!
If you need help more urgently, don't hesitate to ask directly on Slack (e.g. in the #team-data or #software-questions channels).
Where to next?
- If you're new to the centre, check out the :doc:`getting_started` guide.
- If you're looking for help, check out :doc:`getting_help`.
- Want to learn more about infrastructure? Start at: :doc:`infrastructure`.
.. toctree:: :maxdepth: 1 :hidden: :caption: Setup: getting_started.md getting_help.md terminal.md git.md hail.md cpg-ids.md python.md code_editors.md notebooks.md zscaler.md
.. toctree:: :maxdepth: 1 :caption: About the centre reproducible_analyses.md storage_policies/README.md
.. toctree:: :maxdepth: 1 :caption: Libraries cpg-utils/index production-pipelines/index metamist/index
.. toctree:: :maxdepth: 1 :caption: Infrastructure infrastructure.md cpg-infrastructure/user.rst cpg-infrastructure/developer.rst
.. toctree:: :maxdepth: 1 :caption: Guides notebooks.md new_repository.md r_style_guide.md cpg_utils_config.md data_sharing.md budgets.md bioinformatics/igv.md
.. toctree:: :maxdepth: 1 :caption: Playbooks playbooks/hail_batch.md playbooks/hail_query_on_batch.md playbooks/hail_query_on_dataproc.md