starfish: scalable pipelines for image-based transcriptomics

Jupyter Notebook Python wdl Submitted 29 June 2020 • Published 04 May 2021
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Review

Editor: @csoneson (all papers)
Reviewers: @giovp (all reviews), @shazanfar (all reviews), @vals (all reviews)

Authors

Shannon Axelrod, Matthew Cai (0000-0003-4998-6328), Ambrose J. Carr (0000-0002-8457-2836), Jeremy Freeman (0000-0001-7077-7972), Deep Ganguli, Justin T. Kiggins (0000-0002-4638-7015), Brian Long (0000-0002-7793-5969), Tony Tung, Kevin A. Yamauchi (0000-0002-7818-1388)

Citation

Axelrod et al., (2021). starfish: scalable pipelines for image-based transcriptomics. Journal of Open Source Software, 6(61), 2440, https://doi.org/10.21105/joss.02440

@article{Axelrod2021, doi = {10.21105/joss.02440}, url = {https://doi.org/10.21105/joss.02440}, year = {2021}, publisher = {The Open Journal}, volume = {6}, number = {61}, pages = {2440}, author = {Shannon Axelrod and Matthew Cai and Ambrose J. Carr and Jeremy Freeman and Deep Ganguli and Justin T. Kiggins and Brian Long and Tony Tung and Kevin A. Yamauchi}, title = {starfish: scalable pipelines for image-based transcriptomics}, journal = {Journal of Open Source Software} }
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Tags

xarray skimage microscopy imaging biology single cell biology spatial transcriptomics MERFISH In Situ Sequencing osmFISH smFISH BaristaSeq dartfish starmap seqFISH

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Journal of Open Source Software is an affiliate of the Open Source Inititative.

Journal of Open Source Software is part of Open Journals, which is a NumFOCUS-sponsored project.

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ISSN 2475-9066