What is Count feature barcodes?

Count feature barcodes is a tool for quantifying the number of feature barcodes per cell from CITE-Seq, cell hashing, or other feature barcoding assays. The input for Count feature barcodes is FASTQ files. Salmon¹ is a method for quantifying transcript abundance from raw read sequence fastq files, it will generate transcript level count matrix as output.

Running Count feature barcodes

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For more information about library file management, please see Library File Management.

References

1. Rob Patro, Geet Duggal, Michael Love, Rafeal A Irizarry, Carl Kingsford. Salmon: fast and bias-aware quantification of transcript expression using dual-phase inference. Published online 2017 Mar 6. doi:10.1038/nmeth.4197

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