Fast analysis of Spatial Transcriptomics
FaST is designed to allow quick analysis of large spatial transcriptomics datasets based on the repurposing of the Illumina flow-cell as an RNA capture device. Published protocols supported by FaST include OpenST, seqscope, novascope and Stereo-seq.
Please check the full documentation
Requirements:
pigz
bash shell environment
bedtools v2.30.0 or later
samtools v1.19.2
STAR v2.7.11a or later
spateo-release v1.0.2 (for RNA segmentation only)
scanpy v1.9.8 or later (optional, for automated exploratory analysis)