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bcRep (version 1.1)
Advanced Analysis of B Cell Receptor Repertoire Data
Description
Methods for advanced analysis of B cell receptor repertoire data, like gene usage, mutations, clones and diversity and their visualisation.
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Install
install.packages('bcRep')
Monthly Downloads
104
Version
1.1
License
GPL-2
Maintainer
Julia Bischof
Last Published
October 12th, 2015
Functions in bcRep (1.1)
Search functions
ntseqtab
Summary of nucleotide sequences of B cells of one individual
aaseqtab
Summary of amino acid sequences of B cells of one individual
clones.ind
Data frame: clones of one individual
sequences.junctionFrame
Summary of junction frames of sequences
sequences.getAnyFunctionality
Filter for productive or unproductive sequences
sequences.geneComb
Gene combinations gene families
plotClonesCopyNumber
Copy number of clones
bcRep-package
Advanced Analysis of B Cell Receptor Repertoire Data
sequences.getAnyJunctionFrame
Filter for in-frame or out-of-frame sequences
aaDistribution
Amino acid distribution of sequences
clones
Grouping sequences into clones
sequences.functionality
Summary of functionality of sequences
readIMGT
Read IMGT/HighV-QUEST output files
trueDiversity
True diversity of sequences
sequences.mutation
Basic statistics on mutations of sequences
clones.allind
B cell clones of 8 individuals
summarytab
Summary information of B cells of one individual
clones.CDR3Length
CDR3 length distribution of clones
clones.shared
Shared clones between individuals
mutationtab
Summary of mutations cells
geneUsage
Gene usage of clones