Data Formatting Examples Using TileFetcher

There is currently no widely used standard data format for image-based microscopy data. starfish works best when data is converted into the SpaceTx data format. Here, we provide several examples of how to convert data from non-standardized data formats into SpaceTx format from a variety of types of input data shapes and sizes, demonstrating the flexibility of TileFetcher.

These examples are provided for illustrative purposes, demonstrating how the TileFetcher is used in practice. They will need to be adapted to meet the specific needs of your data.

Format BaristaSeq

Format BaristaSeq

Format In Situ Sequencing Mouse x Human Experiment

Format In Situ Sequencing Mouse x Human Experiment

Format In-Situ Sequencing Data

Format In-Situ Sequencing Data

Format Imaging Cytof Data

Format Imaging Cytof Data

Format MERFISH data

Format MERFISH data

Format SeqFISH Data

Format SeqFISH Data

Format osmFISH Data

Format osmFISH Data

Format STARmap data

Format STARmap data