DOI: 10.18129/B9.bioc.abseqR  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see abseqR.

Reporting and data analysis functionalities for Rep-Seq datasets of antibody libraries

Bioconductor version: 3.17

AbSeq is a comprehensive bioinformatic pipeline for the analysis of sequencing datasets generated from antibody libraries and abseqR is one of its packages. abseqR empowers the users of abseqPy (https://github.com/malhamdoosh/abseqPy) with plotting and reporting capabilities and allows them to generate interactive HTML reports for the convenience of viewing and sharing with other researchers. Additionally, abseqR extends abseqPy to compare multiple repertoire analyses and perform further downstream analysis on its output.

Author: JiaHong Fong [cre, aut], Monther Alhamdoosh [aut]

Maintainer: JiaHong Fong <jiahfong at gmail.com>

Citation (from within R, enter citation("abseqR")):


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PDF R Script Introduction to abseqR
PDF   Reference Manual
Text   NEWS


biocViews MultipleComparison, QualityControl, ReportWriting, Sequencing, Software, Visualization
Version 1.18.0
In Bioconductor since BioC 3.8 (R-3.5) (5 years)
License GPL-3 | file LICENSE
Depends R (>= 3.5.0)
Imports ggplot2, RColorBrewer, circlize, reshape2, VennDiagram, plyr, flexdashboard, BiocParallel(>= 1.1.25), png, grid, gridExtra, rmarkdown, knitr, vegan, ggcorrplot, ggdendro, plotly, BiocStyle, stringr, utils, methods, grDevices, stats, tools, graphics
Suggests testthat
SystemRequirements pandoc (>=
URL https://github.com/malhamdoosh/abseqR
BugReports https://github.com/malhamdoosh/abseqR/issues
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