Hashtag Demultiplex Pipeline

Files

• main.df: Contains Nextflow script, which calls the processes
• nextflow.config: Default parameters for the pipeline
• Folder with R tools Implementations
• Folder with Python tools Implementations
• Folder Modules Nextflow modules

HTODemux

Input

• UMI Matrix.rds File
• Hashtag counts matrix .rds File. (*)
• Parameters for HTODemux

MULTI-seq

Input

• UMI Matrix.rds File
• Hashtag counts matrix .rds File. (*)
• Parameters for MULTI-seq

Hashed Drops

Input

• UMI Matrix.rds File
• Parameters for Hashed Drops

DemuxEM

Input

• UMI Matrix hdf5 File
• Hashtag counts matrix - 10x Folder path
• Parameters for DemuxEM

Hash Solo

Input

• Hashtag counts matrix - 10x Folder path
• Parameters for Hash Solo