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BASIC (uchicago)
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BASIC (uchicago)

BASIC is a tool for assembling B-cell receptor (BCR) single-cell RNA-seq data. The BASIC algorithm first identifies known constant and variable regions to anchor sequences and then uses the recognized anchors to guide the assembly of BCR.



BASIC (uchicago)

BASIC is a tool for assembling B-cell receptor (BCR) single-cell RNA-seq data. The BASIC algorithm first identifies known constant and variable regions to anchor sequences and then uses the recognized anchors to guide the assembly of BCR.

Topic

Immunoproteins, genes and antigens; RNA-seq

Details

  • Operation: De-novo assembly
  • Software interface: Command-line user interface
  • Language: Python
  • Operating system: Microsoft Windows, Mac OS X, Linux
  • License: The MIT License
    • Cost: Free
  • Version name: 1.5.0
    • Maturity: Stable
  • Credit: The National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health (MIH)
  • Contact: Aly A Khan aakhan _at_ ttic.edu
  • Collection: -

Publications

Canzar S, Neu KE, Tang Q, Wilson PC, Khan AA "BASIC: BCR assembly from single cells." Bioinformatics. 2017 Feb 1;33(3):425-427. https://doi.org/10.1093/bioinformatics/btw631
PMID: 28172415
PMCID: PMC5408917


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