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BCR Assembly from SIngle Cells BASIC

Allows investigators to use scRNA-seq for assembling BCR sequences at single cell resolution. BASIC performs semi-de novo assembly in two stages: (i) uses known constant and variable regions to identify anchor sequences, and (ii) uses these anchors to guide the de novo assembly of the BCR. BASIC can help couple gene expression information from scRNA-seq with immune repertoire, and facilitate studies between B-cell receptor features, clonality, differentiation and transcriptional programming at single cell resolution.

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BASIC forum

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BASIC classification

BASIC specifications

Software type:
Package/Module
Restrictions to use:
None
Programming languages:
Python
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes
Interface:
Command line interface
Operating system:
Unix/Linux
License:
MIT License
Version:
1.0.1
Requirements:
Bowtie2

BASIC distribution

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Publications

Institution(s)

Toyota Technological Institute at Chicago, Chicago, IL, USA; Committee on Immunology, The Knapp Center of Lupus and Immunology Research, The University of Chicago, Chicago, IL, USA

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