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adding scPRINT and its suite of packages #195

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21 changes: 21 additions & 0 deletions packages/GRnnData/meta.yaml
Original file line number Diff line number Diff line change
@@ -0,0 +1,21 @@
name: GRnnData
description: |
An onverload of anndata to more easily work with gene networks.
Allows easy conversion between anndata and grnndata and provide loads of usefull utilities functions.
project_home: https://github.com/cantinilab/GRnnData
documentation_home: https://jkobject.com/GRnnData
publications:
- 10.1101/2024.07.29.605556
install:
pypi: grnndata
tags:
- single cell
- RNAseq
- gene networks
- format
- utilities
license: MIT
version: v1.0.0
authors:
- jkobject (jeremie kalfon)
test_command: pip install . && make test
20 changes: 20 additions & 0 deletions packages/benGRN/meta.yaml
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name: benGRN
description: |
Benchmarking tool for gene network inference from single cell RNAseq methods.
It uses the grnndata/anndata modality and only contains biological ground truth networks
project_home: https://github.com/jkobject/benGRN
documentation_home: https://jkobject.com/benGRN
publications:
- 10.1101/2024.07.29.605556
install:
pypi: bengrn
tags:
- single cell
- RNAseq
- gene network inference
- benchmark
license: MIT
version: v1.0.1
authors:
- jkobject (jeremie kalfon)
test_command: pip install . && make test
24 changes: 24 additions & 0 deletions packages/scDataLoader/meta.yaml
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@@ -0,0 +1,24 @@
name: scDataLoader
description: |
A dataloader for large single cell databases like cellxgene.
Does weighted random sampling, downloading and preprocessing.
works with anndata, zarr, and h5ad files.
project_home: https://github.com/jkobject/scDataLoader
documentation_home: https://jkobject.com/scDataLoader
publications:
- 10.1101/2024.07.29.605556
install:
pypi: scdataloader
tags:
- dataloader
- single cell
- RNAseq
- pytorch
- lightning
- cellxgene
- preprocessing
license: MIT
version: v1.0.1
authors:
- jkobject (jeremie kalfon)
test_command: pip install . && make test
26 changes: 26 additions & 0 deletions packages/scPRINT/meta.yaml
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@@ -0,0 +1,26 @@
name: scPRINT
description: |
A single cell foundation model for Gene network inference and more...
project_home: https://github.com/cantinilab/scPRINT
documentation_home: https://jkobject.com/scPRINT
publications:
- 10.1101/2024.07.29.605556
install:
pypi: scprint
tags:
- foundation model
- single cell
- RNAseq
- gene network inference
- denoising
- zero imputation
- label prediction
- zero shot
- embedding
- pytorch
- lightning
license: MIT
version: v1.0.12
authors:
- jkobject (jeremie kalfon)
test_command: pip install . && make test
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