Cumulus
2.4.1
  • First Time Running on Terra
  • Cumulus workflows overview
  • Import workflows to Terra
  • Release notes

Droplet-based single-cell assays

  • Run Cell Ranger tools using cellranger_workflow
  • Run STARsolo to generate gene-count matrices from FASTQ files
  • Demultiplex genetic-pooling/cell-hashing/nucleus-hashing sc/snRNA-Seq data
  • Run CellBender for ambient RNA removal
  • Run Cumulus for sc/snRNA-Seq data analysis
  • Run Terra pipelines via command line
  • Examples

Spatial transcriptomics

  • 10x Visium
  • Nanostring GeoMx DSP

SMART-Seq2 and bulk RNA-seq

  • Extract gene-count matrices from plated-based SMART-Seq2 data
  • Bulk RNA-Seq

Drop-Seq pipeline

  • Drop-seq pipeline

Others

  • bcl2fastq
  • Cell Ranger alternatives to generate gene-count matrices for 10X data
  • Topic modeling

Contact

  • Contributions
  • Contact us
Cumulus
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