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sincei 0.5.2 documentation - Home
  • Command Line tools
    • scFilterBarcodes
    • scFilterStats
    • scJSD
    • scCountReads
    • scCountQC
    • scCombineCounts
    • scClusterCells
    • scBulkCoverage
  • Tutorials
    • Analysis of sc-sortChIC data using sincei
    • Analysis of 10x genomics multiome data using sincei
    • Analysis of 10x genomics scATAC-seq data using sincei
    • Analysis of 10x genomics scRNA-seq data using sincei
    • [Python] Counting reads from bam files with ReadCounter
    • [Python] Pre-process single-cell methylome data with sincei
    • [Python] GLM-PCA analysis of single-cell methylome data
  • Python API
    • sincei.ExponentialFamily module
    • sincei.GLMPCA module
    • sincei.TopicModels module
    • sincei.multimodalClustering module
    • sincei.ReadCounter module
    • sincei.RegionQuery module
    • sincei.WriteBedGraph module
    • sincei.Utilities module
  • News and Updates
  • .rst

Tutorials

Contents

  • Tutorials for using sincei on the command line
  • Tutorials for the sincei python package

Tutorials#

Tutorials for using sincei on the command line#

  • Analysis of sc-sortChIC data using sincei

  • Analysis of 10x genomics multiome data using sincei

  • Analysis of 10x genomics scATAC-seq data using sincei

  • Analysis of 10x genomics scRNA-seq data using sincei

Tutorials for the sincei python package#

  • Counting reads from bam files with ReadCounter

  • Pre-process single-cell methylome data with sincei

  • GLM-PCA analysis of single-cell methylome data

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scBulkCoverage

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Analysis of sc-sortChIC data using sincei

Contents
  • Tutorials for using sincei on the command line
  • Tutorials for the sincei python package

By Vivek Bhardwaj, Fernando Sancho Gómez

© Copyright 2025, Vivek Bhardwaj.