snRNAseq scRNAseq Pipeline

Introduction

  • Salient Features
  • Executing the Pipeline

Getting Started

  • Understanding Snakemake workflows
  • A basic pipeline

Understanding the Pipeline

  • Overview of the Pipeline
  • Wildcard Processing
  • Selectable Modules
  • Sub-Snakemake workflows

Advanced Tutorials

  • Demultiplex pooled snRNA seq datasets

Reference

  • Glossary
snRNAseq scRNAseq Pipeline
  • Python Module Index

Python Module Index

c | d | s | u
 
c
create_aggregate_matrix
create_Feat_Barc
create_h5ad_from_bustools
create_h5ad_from_calico_solo
create_inp_cellSNP
create_inp_splitBam_consolidated
create_wet_lab_info
 
d
demul_samples
demultiplex_helper_funcs
 
s
split_seth5ad_to_samph5ad
 
u
update_logs

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