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update evo2 zero shot notebook (#1003)
### Description update evo2 broken link in zero shot notebook ### Type of changes <!-- Mark the relevant option with an [x] --> - [ ] Bug fix (non-breaking change which fixes an issue) - [ ] New feature (non-breaking change which adds functionality) - [ ] Refactor - [x] Documentation update - [ ] Other (please describe): ### CI Pipeline Configuration Configure CI behavior by applying the relevant labels: - [SKIP_CI](https://github.com/NVIDIA/bionemo-framework/blob/main/docs/docs/user-guide/contributing/contributing.md#skip_ci) - Skip all continuous integration tests - [INCLUDE_NOTEBOOKS_TESTS](https://github.com/NVIDIA/bionemo-framework/blob/main/docs/docs/user-guide/contributing/contributing.md#include_notebooks_tests) - Execute notebook validation tests in pytest - [INCLUDE_SLOW_TESTS](https://github.com/NVIDIA/bionemo-framework/blob/main/docs/docs/user-guide/contributing/contributing.md#include_slow_tests) - Execute tests labelled as slow in pytest for extensive testing > [!NOTE] > By default, the notebooks validation tests are skipped unless explicitly enabled. #### Authorizing CI Runs We use [copy-pr-bot](https://docs.gha-runners.nvidia.com/apps/copy-pr-bot/#automation) to manage authorization of CI runs on NVIDIA's compute resources. * If a pull request is opened by a trusted user and contains only trusted changes, the pull request's code will automatically be copied to a pull-request/ prefixed branch in the source repository (e.g. pull-request/123) * If a pull request is opened by an untrusted user or contains untrusted changes, an NVIDIA org member must leave an `/ok to test` comment on the pull request to trigger CI. This will need to be done for each new commit. ### Usage <!--- How does a user interact with the changed code --> ```python TODO: Add code snippet ``` ### Pre-submit Checklist <!--- Ensure all items are completed before submitting --> - [ ] I have tested these changes locally - [ ] I have updated the documentation accordingly - [ ] I have added/updated tests as needed - [ ] All existing tests pass successfully Signed-off-by: Yang Zhang <yangzhang@nvidia.com>
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sub-packages/bionemo-evo2/examples/zeroshot_brca1.ipynb

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"We start by loading a dataset from [Findlay et al. (2018)](https://www.nature.com/articles/s41586-018-0461-z), which contains experimentally measured function scores of 3,893 *BRCA1* SNVs. These function scores reflect the extent by which the genetic variant has disrupted the protein's function, with lower scores indicating greater disruption. In this dataset, the SNVs are classified into three categories based on their function scores: `LOF` (loss-of-function), `INT` (intermediate), and `FUNC` (functional). We start by reading in this dataset.\n",
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"To keep the notebook streamlined, we've abstracted much of the preprocessing logic into accompanying scripts located in `brca1_utils`. The full notebook can be viewed [here](https://github.com/NVIDIA/bionemo-framework/blob/main/docs/docs/user-guide/examples/bionemo-evo2/evo2_zeroshot_brca.ipynb)."
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"To keep the notebook streamlined, we've abstracted much of the preprocessing logic into accompanying scripts located in `brca1_utils`. This notebook can also be viewed [here](https://docs.nvidia.com/bionemo-framework/latest/main/examples/bionemo-evo2/zeroshot_brca1/)."
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