DOI: 10.18129/B9.bioc.sangeranalyseR  

sangeranalyseR: a suite of functions for the analysis of Sanger sequence data in R

Bioconductor version: Release (3.17)

This package builds on sangerseqR to allow users to create contigs from collections of Sanger sequencing reads. It provides a wide range of options for a number of commonly-performed actions including read trimming, detecting secondary peaks, and detecting indels using a reference sequence. All parameters can be adjusted interactively either in R or in the associated Shiny applications. There is extensive online documentation, and the package can outputs detailed HTML reports, including chromatograms.

Author: Rob Lanfear <rob.lanfear at>, Kuan-Hao Chao <ntueeb05howard at>

Maintainer: Kuan-Hao Chao <ntueeb05howard at>

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


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biocViews Alignment, GUI, Genetics, Preprocessing, QualityControl, SangerSeq, Sequencing, Software, Visualization
Version 1.10.0
In Bioconductor since BioC 3.12 (R-4.0) (3 years)
License GPL-2
Depends R (>= 4.0.0), stringr, ape, Biostrings, DECIPHER, parallel, reshape2, phangorn, sangerseqR, gridExtra, shiny, shinydashboard, shinyjs, data.table, plotly, DT, zeallot, excelR, shinycssloaders, ggdendro, shinyWidgets, openxlsx, tools, rmarkdown (>= 2.9), knitr (>= 1.33), seqinr, BiocStyle, logger
Suggests testthat (>= 2.1.0)
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