spacetx

All

13 repositories

starfish
Public
starfish: unified pipelines for image-based transcriptomics
python transcriptomics imaging human-cell-atlas
Python
•
MIT License
•68•226•157•11•Updated Oct 13, 2024Oct 13, 2024
spacetx.github.io
Public
SpaceTx website
Jupyter Notebook
•0•0•0•0•Updated Jun 14, 2023Jun 14, 2023
spacetx-hca-flattener
Public
Python
•
MIT License
•0•0•0•2•Updated Dec 26, 2022Dec 26, 2022
spacetx-biohub-writer
Public
Conversion tool from biohub's DB format to spacetx format
Python
•
MIT License
•1•0•0•1•Updated Nov 15, 2021Nov 15, 2021
spacetx-research
Public
Contains research projects related to image-based transcriptomics assays
Jupyter Notebook
•0•5•22•4•Updated May 26, 2021May 26, 2021
slicedimage
Public
Python
•
MIT License
•3•7•8•0•Updated May 26, 2020May 26, 2020
starfish-workflows
Public
Solutions for running at-scale workflows with starfish
Python
•
MIT License
•0•1•0•0•Updated Nov 15, 2019Nov 15, 2019
starfish-analysis
Public
Contains analyses executed using the starfish package
Python
•
MIT License
•0•1•0•0•Updated Jun 3, 2019Jun 3, 2019
spacetx-writer
Public
Convert supported filesets to the SpaceTx format
conversion bio-formats transcriptomics imaging ome file-formats human-cell-atlas
Java
•
GNU General Public License v2.0
•1•3•6•0•Updated Apr 24, 2019Apr 24, 2019
segment_and_map
Public
This repo includes scripts for segmenting spacetx data sets and mapping the results to a reference RNA-seq data set.
HTML
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Other
•0•2•0•0•Updated Apr 11, 2019Apr 11, 2019
upload-validator
Public
HumanCellAtlas upload-service validator for SpaceTx files
docker validator transcriptomics imaging human-cell-atlas
Makefile
•0•0•0•0•Updated Mar 5, 2019Mar 5, 2019
sptx-format
Public archive
Image data format specification for spaceTx
Python
•
MIT License
•2•3•1•2•Updated Sep 5, 2018Sep 5, 2018
starfish-viz
Public
A web-based visualization for image based transcriptomics data
JavaScript
•
MIT License
•0•0•1•0•Updated Aug 10, 2018Aug 10, 2018