Issues

• RNAScope data compatible?

  hubmapconsortium/spatial-transcriptomics-pipeline#60 · Filter by author KunHHE opened on Sep 22, 2025
  1

• pyro-ppl requirement not included in starfish, when should be mandatory

  hubmapconsortium/spatial-transcriptomics-pipeline#51 · Filter by author ctcisar opened on Feb 29, 2024

• Parallelize slowly running steps in the pipeline

  hubmapconsortium/spatial-transcriptomics-pipeline#48 · Filter by author ctcisar opened on Oct 31, 2023
  

• Implement ResourceRequirements in cwl

  hubmapconsortium/spatial-transcriptomics-pipeline#42 · Filter by author ctcisar opened on Oct 18, 2023

• Evaluate results on MERFISH datasets from URMC TMC

  hubmapconsortium/spatial-transcriptomics-pipeline#37 · Filter by author mruffalo opened on Oct 11, 2023

• Create metadata standard for FISH datasets

  hubmapconsortium/spatial-transcriptomics-pipeline#4 · Filter by author mruffalo opened on Jun 3, 2022

• Release spatial transcriptomics pipeline and integrate with HIVE infrastructure

  hubmapconsortium/spatial-transcriptomics-pipeline#3 · Filter by author mruffalo opened on Apr 7, 2022
  

• Add dataset.json metadata files to new and existing FISH datasets

  hubmapconsortium/spatial-transcriptomics-pipeline#2 · Filter by author mruffalo opened on Apr 7, 2022
  1

  

• document how to run locally

  hubmapconsortium/spatial-transcriptomics-pipeline#1 · Filter by author mr-c opened on Sep 11, 2021