spacetx

Repositories

• starfish

  starfish: unified pipelines for image-based transcriptomics

  python transcriptomics imaging human-cell-atlas
  Python MIT 49 161 152 (2 issues need help) 9 Updated Jul 13, 2021

• spacetx-hca-flattener
  Python MIT 0 0 0 1 Updated Jun 9, 2021

• spacetx-biohub-writer

  Conversion tool from biohub's DB format to spacetx format
  Python MIT 1 0 0 1 Updated Jun 9, 2021

• spacetx-research

  Contains research projects related to image-based transcriptomics assays
  Jupyter Notebook 0 4 22 4 Updated May 26, 2021

• slicedimage
  Python MIT 2 6 8 0 Updated May 26, 2020

• starfish-workflows

  Solutions for running at-scale workflows with starfish
  Python MIT 0 1 0 0 Updated Nov 15, 2019

• starfish-analysis

  Contains analyses executed using the starfish package
  Python MIT 0 1 0 0 Updated Jun 3, 2019

• spacetx-writer

  Convert supported filesets to the SpaceTx format

  conversion bio-formats transcriptomics imaging ome file-formats human-cell-atlas
  Java GPL-2.0 0 1 5 0 Updated Apr 24, 2019

• segment_and_map

  This repo includes scripts for segmenting spacetx data sets and mapping the results to a reference RNA-seq data set.
  HTML 0 2 0 0 Updated Apr 11, 2019

• upload-validator

  HumanCellAtlas upload-service validator for SpaceTx files

  docker validator transcriptomics imaging human-cell-atlas
  Makefile 0 0 0 0 Updated Mar 5, 2019

• sptx-format Archived

  Image data format specification for spaceTx
  Python MIT 2 2 1 2 Updated Sep 5, 2018

• starfish-viz

  A web-based visualization for image based transcriptomics data
  JavaScript MIT 0 0 1 0 Updated Aug 10, 2018