pinellolab/pyrovelocity

Issues

• parameterize GPUAccelerator type in WorkflowConfiguration dataclasses

  #644 opened 4 days ago by cameronraysmith
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• add tests to cytotrace module

  #636 opened 5 days ago by cameronraysmith
  1

• enable model selection for 68k pbmc data set

  #639 opened 7 days ago by cameronraysmith
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• enable model selection for larry data

  #640 opened 7 days ago by cameronraysmith
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• add configuration for 10k pbmc data

  #628 opened 8 days ago by cameronraysmith
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• add configuration for bone marrow data

  #629 opened 8 days ago by cameronraysmith
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• add configuration for pons data

  #631 opened 8 days ago by cameronraysmith
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• add configuration for 5k pbmc data

  #627 opened 8 days ago by cameronraysmith
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• add plots module for cell fate metrics comparison

  #621 opened 11 days ago by cameronraysmith
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• add plots module for cospar-cytotrace correlation

  #622 opened 11 days ago by cameronraysmith
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• add configuration for larry data subsets

  #626 opened 9 days ago by cameronraysmith
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• add posterior summary statistics to postprocessed data objects

  #615 opened 11 days ago by cameronraysmith
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• add data access guide

  #619 opened 11 days ago by cameronraysmith
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• apply preprocessing and model summarization guides in hosted data set tutorials

  #620 opened 11 days ago by cameronraysmith
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• add plots modules to render graphical models

  #616 opened 11 days ago by cameronraysmith
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• add model training guide

  #617 opened 11 days ago by cameronraysmith
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• add postprocessing guide

  #618 opened 11 days ago by cameronraysmith
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• include model metrics with results summaries

  #613 opened 10 days ago by cameronraysmith
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• include preprocessing plot files in workflow lineage tracking

  #614 opened 11 days ago by cameronraysmith
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• automatically persist posterior samples in sparse representation

  #611 opened 11 days ago by cameronraysmith
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• support generation of a transcriptome properties database

  #538 opened 5 months ago by cameronraysmith
  1

• release pyrovelocity to conda-forge

  #527 opened 5 months ago by cameronraysmith
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• pytest fails to find fixture data referenced by local package path

  #609 opened 12 days ago by cameronraysmith
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• create interactive count data joint histogram plot

  #608 opened 13 days ago by cameronraysmith
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• render summary plots with preprocessing task

  #604 opened 13 days ago by cameronraysmith
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• add io functionality to serialize anndata objects to json

  #606 opened 16 days ago by cameronraysmith
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• add integration tests for task modules

  #599 opened 17 days ago by cameronraysmith
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• add unit test modules for plotting functions

  #598 opened 17 days ago by cameronraysmith
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• document comparison of gene selection among model configurations

  #595 opened 17 days ago by cameronraysmith
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• document single gene simulation, analysis, and inference

  #539 opened 2 months ago by cameronraysmith
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• support code-server and jupyter image builds

  #540 opened 2 months ago by cameronraysmith
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• simulate deterministic data

  #536 opened 2 months ago by cameronraysmith
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• refactor python tasks to library subpackage

  #529 opened 5 months ago by cameronraysmith
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• update template notebooks to use local workflow execution

  #530 opened 5 months ago by cameronraysmith
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• prototype workflow task to generate shareable summary archive

  #528 opened 5 months ago by cameronraysmith
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• prototype workflow task for distributed model summarization

  #520 opened 5 months ago by cameronraysmith
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• add colab user notebook

  #525 opened 5 months ago by cameronraysmith
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• upgrade to flytekit 1.10.7

  #526 opened 5 months ago by cameronraysmith
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• add support for torch and lightning `>2`

  #523 opened 5 months ago by cameronraysmith
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• add support for pandas `>2`

  #524 opened 5 months ago by cameronraysmith
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• add support for python 3.11

  #522 opened 5 months ago by cameronraysmith
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• push nix images to ghcr and gar to support image streaming

  #519 opened 6 months ago by cameronraysmith
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• prototype workflow task for distributed post-processing

  #517 opened 6 months ago by cameronraysmith
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• refactor model modules to models package

  #516 opened 7 months ago by cameronraysmith
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• add tests for velocity_model

  #515 opened 7 months ago by cameronraysmith
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• add tests to data module

  #514 opened 7 months ago by cameronraysmith
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• upgrade to flytekit 1.10.3

  #511 opened 7 months ago by cameronraysmith
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• map data download task over multiple data sets

  #509 opened 7 months ago by cameronraysmith
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• migrate data download from external script to library internals

  #508 opened 7 months ago by cameronraysmith
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• type-check velocity model at runtime to ensure consistent usage of tensor dimensions

  #507 opened 7 months ago by cameronraysmith
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