added rxrx3-core #13
Open
added rxrx3-core #13
Conversation
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
ihaque
reviewed
Nov 11, 2024
|
|
||
| **RxRx3-core is only 18GB and easily accesible via [Hugging Face](https://huggingface.co/datasets/recursionpharma/rxrx3-core)**. | ||
|
|
||
| If you'd like to understand more about how to get access to unblinded genes please email [[email protected]](mailto:[email protected]). |
ihaque
reviewed
Nov 11, 2024
|
|
||
| ## Deep Learning Embeddings | ||
|
|
||
| The deep learning embeddings are provided as `OpenPhenom_rxrx3_core_embeddings.parquet` and can be downloaded [from here](https://huggingface.co/datasets/recursionpharma/rxrx3-core/blob/main/OpenPhenom_rxrx3_core_embeddings.parquet) (this is ~ 532 MB). |
There was a problem hiding this comment.
share which model these are derived from
ihaque
reviewed
Nov 11, 2024
| ## Accessing RxRx3-core through Hugging Face API | ||
|
|
||
| Loading the RxRx3-core image dataset. | ||
| An example of running inference on this dataset with OpenPhenom is provided [here](https://huggingface.co/recursionpharma/OpenPhenom/blob/main/RxRx3-core_inference.ipynb). |
There was a problem hiding this comment.
ditto elsewhere the model is mentioned
ihaque
reviewed
Nov 11, 2024
| @@ -8,3 +8,4 @@ for public research by [Recursion Pharmaceuticals](recursionpharma.com). | |||
| - [RxRx19a -- Morphological Imaging Dataset of SARS-CoV-2 viral infection](/rxrx19a) | |||
| - [RxRx19b -- Morphological Imaging of the COVID-19-associated cytokine storm](/rxrx19b) | |||
| - [RxRx3 -- Phenomics Map of Biology](/rxrx3) | |||
| - [RxRx3-core -- Challenge dataset in phenomics](/rxrx3-core) | |||
There was a problem hiding this comment.
We should have a better short name than "challenge dataset in phenomics". Ideas?
There was a problem hiding this comment.
Benchmarking dataset for phenomic embedding models
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
added description of RxRx3-core