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bioRxiv · 10.1101/2020.05.18.102459

sangeranalyseR: simple and interactive analysis of Sanger sequencing data in R

Chao, K.-H.·Barton, K.·Palmer, S.·Lanfear, R.
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Abstract

SummarysangeranalyseR is an interactive R/Bioconductor package and two associated Shiny applications designed for analysing Sanger sequencing from data from the ABIF file format in R. It allows users to go from loading reads to saving aligned contigs in a few lines of R code. sangeranalyseR provides a wide range of options for a number of commonly-performed actions including read trimming, detecting secondary peaks, viewing chromatograms, and detecting indels using a reference sequence. All parameters can be adjusted interactively either in R or in the associated Shiny applications. sangeranalyseR comes with extensive online documentation, and outputs detailed interactive HTML reports. Availability and implementationsangeranalyseR is implemented in R and released under an MIT license. It is available for all platforms on Bioconductor (https://bioconductor.org/packages/sangeranalyseR) and on Github (https://github.com/roblanf/sangeranalyseR). Contactkuanhao.chao@gmail.com Supplementary informationDocumentation at https://sangeranalyser.readthedocs.io/.

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Chao, K.-H., Barton, K., Palmer, S., Lanfear, R.. 2020-05-21. sangeranalyseR: simple and interactive analysis of Sanger sequencing data in R. https://doi.org/10.1101/2020.05.18.102459

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