Alternatives and similar repositories for pipex

Users that are interested in pipex are comparing it to the libraries listed below

• angelolab / ark-analysis
  Integrated pipeline for multiplexed image analysis
  ☆91Updated 3 months ago
• KerenLab / CellSighter
  ☆33Updated last year
• scverse / napari-spatialdata
  Interactive visualization of spatial omics data
  ☆61Updated last week
• labsyspharm / cylinter
  An Interactive Image Segmentation Filter for Multiplex Microscopy
  ☆30Updated 5 months ago
• TissUUmaps / TissUUmaps
  TissUUmaps is a browser-based tool for fast visualization and exploration of millions of data points overlaying a tissue sample. TissUUma…
  ☆58Updated last month
• hubmapconsortium / codex-pipeline
  CODEX data processing code
  ☆12Updated last week
• labsyspharm / mcmicro
  Multiple-choice microscopy pipeline
  ☆133Updated 4 months ago
• labsyspharm / scimap
  Spatial Single-Cell Analysis Toolkit
  ☆92Updated 2 weeks ago
• plevritis-lab / CELESTA
  Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …
  ☆35Updated last year
• SydneyBioX / BIDCell
  Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data
  ☆43Updated 11 months ago
• ciccalab / SIMPLI
  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
  ☆38Updated 2 years ago
• labsyspharm / palom
  Piecewise alignment for layers of mosaics
  ☆25Updated last week
• GuignardLab / napari-sc3D-viewer
  A plugin to visualise 3D spatial single cell omics
  ☆22Updated 3 weeks ago
• VasylVaskivskyi / microaligner
  Image registration (alignment) software for large microscopy images
  ☆25Updated last year
• MannLabs / scPortrait
  scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images
  ☆47Updated this week
• scverse / spatialdata-io
  ☆63Updated 2 weeks ago
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆80Updated 3 weeks ago
• huangch / qust
  QuST: QuPath Extension for Integrative Whole Slide Image and Spatial Transcriptomics Analysis
  ☆28Updated 3 weeks ago
• ksugar / qupath-extension-cellsparse
  QuPath extension for Cellsparse
  ☆19Updated 2 months ago
• fish-quant / big-fish
  Toolbox for the analysis of smFISH images.
  ☆68Updated last year
• fish-quant / ComSeg
  comseg
  ☆23Updated 5 months ago
• angelolab / Nimbus
  ☆18Updated this week
• gustaveroussy / sopa
  Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…
  ☆205Updated this week
• nolanlab / REDSEA
  ☆18Updated last year
• qupath / qupath-extension-instanseg
  The official QuPath extension for InstanSeg
  ☆21Updated last week
• HiDiHlabs / ssam
  ☆27Updated 9 months ago
• nolanlab / TissueSchematics
  Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"
  ☆10Updated 2 years ago
• EliHei2 / segger_dev
  a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…
  ☆72Updated last month
• chenhcs / SCS
  Sub-cellular spatial transcriptomics Cell Segmentation
  ☆66Updated last year
• giovp / spatialdata-sandbox
  ☆12Updated 2 months ago