Repositories list

• napari-tmidas

  Public
  Automated batch processing of cell and tissue microscopy image data in Napari

  batch-processingcell-segmentationcell-tracking+ 7

  batch-processingcell-segmentationcell-trackingnapari-pluginnuclei-segmentationmicroscopy-datacellposemicroscopy-image-analysissam2microscopy-image-processing

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •00 forks•1212 stars•11 issue•00 pull requests•Updated Apr 15, 2026Apr 15, 2026

• T-MIDAS

  Public
  Automated batch processing of tissue microscopy image data with a text-based interface

  image-processingbioimage-analysismicroscopy-images+ 1

  image-processingbioimage-analysismicroscopy-imageswsi-images

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •11 fork•99 stars•00 issues•00 pull requests•Updated Mar 24, 2026Mar 24, 2026

• PUB_Carvalho_et_al_2026

  Public
  Code associated with Carvalho et al 2026

  00 forks•00 stars•00 issues•00 pull requests•Updated Dec 29, 2025Dec 29, 2025

• LipidLocator

  Public
  Shiny App to analyze spatial lipidomics data

  R

  •

  MIT License

  •00 forks•44 stars•00 issues•00 pull requests•Updated Dec 8, 2025Dec 8, 2025

• PUB_Coppe_et_al_2024

  Public
  Coppe_et_al_2024

  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 8, 2024Nov 8, 2024

• PUB_Coppe_et_al_2024_shiny_binder

  Public
  Shiny app for Coppe et al, 2024

  R

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 8, 2024Nov 8, 2024

• PUB_Chavez_et_al_2023

  Public
  Autophagy - lysosomal processing is essential for cardiac valve development

  Jupyter Notebook

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 25, 2024Oct 25, 2024

• PUB_Chavez_et_al_2023_shiny_binder

  Public
  shiny app for Chavez et al 2024

  R

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 25, 2024Oct 25, 2024

• PUB_Garcia-Poyatos_et_al_2024

  Public
  Jupyter Notebook

  •

  Other

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 4, 2024Oct 4, 2024

• PUB_Garcia-Poyatos_et_al_2024_shiny_binder

  Public
  shiny app binder github repository for Garcia-Poyatos et al 2024

  R

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Apr 4, 2024Apr 4, 2024

• PUB_Trappetti_et_al_2024

  Public
  Nanostring downsteam analysis

  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 31, 2024Jan 31, 2024

• CoVasc_DataApp

  Public
  transitioning from streamlit to mybinder

  Jupyter Notebook

  •22 forks•00 stars•00 issues•00 pull requests•Updated Jul 10, 2023Jul 10, 2023

• PUB_Botos_et_al_2022

  Public
  Transcriptomic data meta-analysis reveals common and injury model specific gene expression changes in the regenerating zebrafish heart.

  HTML

  •00 forks•55 stars•11 issue•00 pull requests•Updated Mar 16, 2023Mar 16, 2023

• PUB_Botos_et_al_2022_shinyapp_binder

  Public
  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 15, 2023Mar 15, 2023

• LactateRegeneration

  Public
  ImageJ Macro language script to quantify signal from 2D images

  ImageJ Macro

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 27, 2023Jan 27, 2023

• PUB_Marques_et_al_2021

  Public
  This repository contains the code referenced to in Marques, et al. 2021.

  Jupyter Notebook

  •00 forks•11 star•00 issues•00 pull requests•Updated Aug 10, 2021Aug 10, 2021

• Webpage-MercaderLab

  Public
  Here you will find a set of tools to process and/or analyze image data. Especially for applications around the zebrafish from zebrafish embryos to adult hearts.

  CSS

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 3, 2020Sep 3, 2020