TCRprofile R package is designed for pairing alpha beta chains to label functional T cells from 10X immune profile outputs.
The aim of TCRprofile package is to select functional T cells with paired TCR alpha and beta chains.
The selection criteria of paired TCR alpha and beta chains are either a cell with:
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1 alpha chain + 1 beta chain
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2 alpha chains + 1 beta chain
As a result of these, the summary of clonotype pairing table will provide a brief summary.
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A cell with functional alpha beta chains, will be classified as paired
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A cell with more than two chains (except for 2 alpha chains + 1 beta chain) will be classified as multi (cell with multiple chains).
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A cell with only 1 alpha chain or 1 beta chain, will be classified as tra or trb.
Details are in vignette.