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scGESTALT
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scGESTALT

scGESTALT is a docker image that processes GESTALT barcode sequencing data. scGESTALT can recostruct cell lineages using single-cell RNA-seq (scRNA-seq) and CRISPR-Cas9 barcodes.



scGESTALT

scGESTALT is a docker image that processes GESTALT barcode sequencing data. scGESTALT can recostruct cell lineages using single-cell RNA-seq (scRNA-seq) and CRISPR-Cas9 barcodes.

Topic

Cell biology; Transcriptomics; RNA-seq

Details

  • Operation: RNA-Seq analysis
  • Software interface: Command-line user interface
  • Language: Scala
  • Operating system: Linux
  • License: Not stated
    • Cost: Free
  • Version name: -
  • Credit: Canadian Institutes of Health Research, Allen Discovery Center, Us National Institutes of Health (NIH).
  • Contact: Bushra Raj bushranraj _at_ gmail.com
  • Collection: -

Publications

Raj B, Gagnon JA, Schier AF "Large-scale reconstruction of cell lineages using single-cell readout of transcriptomes and CRISPR-Cas9 barcodes by scGESTALT." Nat Protoc. 2018 Nov;13(11):2685-2713. https://doi.org/10.1038/s41596-018-0058-x
PMID: 30353175
PMCID: PMC6279253


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