index.rst

Run Cell Ranger tools using cellranger_workflow

cellranger_workflow wraps Cell Ranger to process single-cell/nucleus RNA-seq, single-cell ATAC-seq and single-cell immune profiling data, and supports feature barcoding (cell/nucleus hashing, CITE-seq, Perturb-seq). It also provide routines to build cellranger references.

A general step-by-step instruction

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Single-cell and single-nucleus RNA-seq

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Feature barcoding assays (cell & nucleus hashing, CITE-seq and Perturb-seq)

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Single-cell ATAC-seq

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Single-cell immune profiling

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Single-cell multiomics

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Fixed RNA Profiling

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Build Cell Ranger References