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README.md

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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