deploy: b782e93

fix typo

Former-commit-id: e751300

Add reversed norm order for ALRA in Denoising Task (#835)

* add reverse order/regular order

Try to match the magic code format for decorators and implementation of reverse norm

* Update __init__.py

* pre-commit

* Update alra.py

* Update alra.py

* pre-commit

* Fix method names

* Update alra.py

* function names should be lowercase

* Update alra.R

* X is unused

* Fix bug

* Revert 5fa2c64 [formerly 77302de]

* pre-commit

* Actually pass sqrt in sqrt norm methods

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Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Scott Gigante <84813314+scottgigante-immunai@users.noreply.github.com>
Former-commit-id: 86375dd

Update nf-openproblems to v1.10 (#815)

* use v1.10 benchmark

* just pull the images

* update full benchmark to v1.10

Former-commit-id: 2da81a9

scib 1.1.3

Former-commit-id: 5be696e

pymde doesn't work on sparse data

Former-commit-id: 9717065

add hvg_unint and n_genes_pre to lung_batch

Former-commit-id: 1a5d747

Daniel strobl hvg conservation fix (#785)

* hvg conservation metric fix

* pre-commit

* Allow for uppercase repo owner

* Fix sklearn req

* bash not sh

* bugfix use index

* add to api

* pre-commit

* list instead of index

* check number of genes

* pre-commit

* addressing comments

* pre-commit

* shorten line

* addressing comments

* pre-commit

* fix checks

* remove magic numbers

* pre-commit

* int -> numbers.Integral

* Fix typo

* fix dataset size assumption and duck-type hvg_unint

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Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Scott Gigante <84813314+scottgigante-immunai@users.noreply.github.com>
Co-authored-by: Scott Gigante <scott.gigante@immunai.com>
Former-commit-id: 814fedc

Ccc aggregate + ligand-target subtask fix (#752)

* fix issue with random ligand-target, add aggregations

* pre-commit

* replace tag with commit

* retry with release

* add basilisk.utils to requirements

* add dir.expiry to r-extras

* pre-commit

Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Scott Gigante <84813314+scottgigante-immunai@users.noreply.github.com>
Former-commit-id: a49ae99

Task denoising dataset pancreas (#593)

* Create mouse_blood_olssen_labelled.py

* Update __init__.py

* Update mouse_blood_olssen_labelled.py

* pre-commit

* Update mouse_blood_olssen_labelled.py

* pre-commit

* add image spec

* pre-commit

* Rename mouse_blood_olssen_labelled.py to pancreas.py

* Update pancreas.py

* Update __init__.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* pre-commit

* Update pancreas.py

* Update pancreas.py

* pre-commit

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Update pancreas.py

* Improve dataset name

Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Scott Gigante <84813314+scottgigante-immunai@users.noreply.github.com>
Former-commit-id: 725ff0c