BioCell2XML

BioCell2XML converts cell lineage data from SIMI BioCell into MaMuT-compatible XML to enable analysis of embryonic cell lineage dynamics within the MaMuT plugin for Fiji.

Key Features:

• Data conversion: Transforms SIMI BioCell lineage files into a MaMuT-compatible XML format.
• Integration with Fiji/MaMuT: Produces output intended for direct use with the MaMuT plugin within the Fiji image-processing platform.
• Preservation of lineage information: Retains manually traced cell genealogy and the level of detail present in SIMI BioCell datasets during conversion.
• Legacy data reuse: Enables continued analysis of existing SIMI BioCell datasets by converting them into a contemporary MaMuT-compatible format.

Scientific Applications:

• Embryonic development analysis: Facilitates downstream analysis of cell lineage dynamics during embryogenesis using MaMuT.
• Cross-species lineage studies: Enables reuse of SIMI BioCell datasets generated from various species for comparative lineage analyses.
• Large-scale dataset analysis: Allows legacy SIMI BioCell lineage data to be analyzed within MaMuT workflows that support larger datasets.

Methodology:

Converts SIMI BioCell lineage files into MaMuT-compatible XML for use in Fiji/MaMuT, preserving manually traced cell genealogy and dataset detail.