ELEPHANT cell tracking software
3D cell tracking combining manual annotation, deep learning and proofreading. Interactive setup enables users to train deep learning models incrementally, using sparse annotations, making deep learning widely accessible for cell tracking.

CellSparse cell/nuclei segmentation software
Enables incremental training of deep learning models for cell/nuclei segmentation software CellPose and Stardist, using sparse annotations. 

CeLaVi lineage visualisation tool
Web-based visualization tool that allows users to navigate and interact with cell lineage trees, whilst simultaneously visualising the spatial distribution, identities and properties of cells.

Imaging code and plugins
Additional code and plugins to facilitate image alignment, file conversions etc.

Live imaging of regenerating Parhyale leg
Data from Sugawara et al 2022, including live recordings and cell tracks

Nucleus segmentation using StarDist-3D
Data from F. Alwes used in Weigert et al. 2020

Long-term live imaging of Parhyale leg regeneration
Data from Cevrim, Laphace-Builhé, Sugawara et al. 2024,
including 22 complete time lapse datasets

Parhyale genome assembly
Current version of the Parhyale genome assembly (updated 2018)

Parhyale genome annotation
Current version of the Parhyale genome annotation, from Sinigaglia et al. 2022.  See datasets S1, S2 and S29.

RNAseq profiling of Parhyale leg development and regeneration
From Sinigaglia et al. 2022

RNAseq profiling of the Parhyale molting cycle
From Sinigaglia et al. 2022

Single-nucleus RNAseq on adult Parhyale legs
From Almazan et al. 2022

Plasmids for CRISPR, transgenesis and mosaic tools
- Minos transposon vectors
- CRISPR tools for Tribolium
- Mosaic labelling tools for Tribolium
- Toolkit of membrane-localising tags

Nubbin/Pdm cross-reactive monoclonal antibody 2D4
Detects Nubbin/Pdm homeodomain epitope that is conserved in a wide range of arthropods, including Drosophila, Artemia, Parhyale and crayfish

Life Through the Looking Glass
A virtual exhibition by young researchers (including Alba Almazan from our team) presenting their ongoing work on animal evolution.