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List of supported techniques

Though celseq2 is dedicated to process CEL-Seq2 sequencing data, it is also compatible to data generated in following contexts, because of the similar design principles of the UMI and cell barcodes.

  1. Spatial transcriptome data. celseq2 works similar to st_pipeline, except that celseq2 uses Bowtie2 for aligment while st_pipeline uses STAR. After version 0.5.1 celseq2 is able to use STAR for ST as well.