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"page": "dot-plotIGVErrors", "title": "Plots the error distribution for IGV germlines", "topics": [ ".plotIGVErrors" ] }, { "page": "dot-plotIGVUpstreamLenDist", "title": "Plot IGV family distribution for a given 'upstreamLengthRange'", "topics": [ ".plotIGVUpstreamLenDist" ] }, { "page": "dot-plotIGVUpstreamLenDistDetailed", "title": "Plots the detailed length distribution for IGV families", "topics": [ ".plotIGVUpstreamLenDistDetailed" ] }, { "page": "dot-plotPrimerIGVStatus", "title": "Plots, for a given 'category' and 'pend', the 'primer' IGV indelled distribution in a bar plot", "topics": [ ".plotPrimerIGVStatus" ] }, { "page": "dot-plotPrimerIntegrity", "title": "Plots the distribution of primer integrity for a given 'category' and 5' or 3' 'pend'", "topics": [ ".plotPrimerIntegrity" ] }, { "page": "dot-plotRarefaction", "title": "Rarefaction plot", "topics": [ ".plotRarefaction" ] }, { "page": "dot-plotRecapture", "title": "Plots capture-recapture", "topics": [ ".plotRecapture" ] }, { "page": "dot-plotSamples", "title": "Monolith AbSeq Plot function - the \"driver\" program", "topics": [ ".plotSamples" ] }, { "page": "dot-plotSpectratype", "title": "Spectratype plotter", "topics": [ ".plotSpectratype" ] }, { "page": "dot-plotUpstreamLength", "title": "Plot upstream distribution", "topics": [ ".plotUpstreamLength" ] }, { "page": "dot-plotUpstreamLengthDist", "title": "Plot upstream sequence length distribution for upstream sequences (5'UTR or secretion signal) for a given 'upstreamLengthRange'", "topics": [ ".plotUpstreamLengthDist" ] }, { "page": "dot-primerAnalysis", "title": "Conducts primer specificity analysis", "topics": [ ".primerAnalysis" ] }, { "page": "dot-prodDistPlot", "title": "Plots a distribution plot for different productivity analysis files", "topics": [ ".prodDistPlot" ] }, { "page": "dot-productivityAnalysis", "title": "Conducts productivty analysis", "topics": [ ".productivityAnalysis" ] }, { "page": "dot-productivityPlot", "title": 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"abseqR: reporting and data analysis functionalities for Rep-Seq datasets of antibody libraries", "author": "Jia Hong Fong, Monther Alhamdoosh", "engine": "knitr::rmarkdown", "headings": [ "Introduction", "AbSeq core analyses", "Installation", "Bioconductor", "GitHub", "System prerequisites", "R package dependencies", "Quick start", "Datasets", "Basic analysis", "HTML reports' directory structure", "Comparative analysis using multiple datasets", "Advanced Examples", "Lazy loading", "Alternative reporting options", "Parallelization", "Interpretation of report's figures", "Sequence quality analysis", "Sequence length", "Alignment quality", "Insertions, deletions, and mismatches", "Abundance and association analysis", "V-(D)-J germline abundance", "V-J germline associations", "Productivity analysis", "V-J frameshifts", "Stop codons", "Indels and mismatches", "Diversity analysis", "Clonotype-based analysis", "Spectratype analysis", "Position-specific analysis", "Comparative analysis", "Over-representation analysis", "Overlapping analysis", "Multi-sample analysis", "Two-sample analysis", "Correlation analysis", "Clustering analysis", "Appendices", "Datasets", "Session Info", "References" ], "created": "2018-07-27 03:10:01", "modified": "2018-10-24 05:20:41", "commits": 21 } ], "_score": 4, "_indexed": true, "_nocasepkg": "abseqr", "_universes": [ "bioc", "darth-donut", "malhamdoosh" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.31.0", "date": "2026-05-29T08:54:29.000Z", "distro": "noble", "commit": "b7b630e1a0f563af7efa36d042e5784cb67a5859", "fileid": "84c7832ebb9722dbc54d44e5bd43789ae342e652134eabafd9e35ebf33506dbf", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26627629106" }, { "r": "4.6.0", "os": "linux", "version": "1.31.0", "date": "2026-05-29T08:55:21.000Z", "distro": "noble", "commit": "b7b630e1a0f563af7efa36d042e5784cb67a5859", "fileid": 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