theislab / theislab/embpy

Add embeddings from this paper

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enhancement
Dominant language
Python
Stars
22
Forks
1
Avg merge
1m
Merged PRs (30d)
2

Description

Description of feature

Which include :

Evaluation of input data modality choices on functional
gene embeddings

  • Human Phenotype Project
  • Omics embeddings
  • Polygenetic priority score embeddings
  • Gene-list predictions
  • Genome-wide association study signal predictions
  • PubMed Counts

Contributor guide

Open the contributing guide

First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

No files, tests, or entry points are named. Start by reading the linked paper and the repository's existing embedding workflow, then clarify which listed sources must be supported and how each embedding should be evaluated. Done means the agreed embedding sources are implemented with reproducible outputs and validation.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
bioinformatics, machine-learning
Issue type
Feature
Difficulty
5/5
Estimated time
Over a week
Activity status
Quiet
Clarity
Needs clarification
Newbie friendliness
25/100

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