recipe bioconductor-sangeranalyser

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

Homepage

https://bioconductor.org/packages/3.13/bioc/html/sangeranalyseR.html

License

GPL-2

Recipe

/bioconductor-sangeranalyser/meta.yaml

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.

package bioconductor-sangeranalyser

Versions

1.2.0-0,  1.0.0-1,  1.0.0-0

Depends

• bioconductor-biocstyle >=2.20.0,<2.21.0

• bioconductor-biostrings >=2.60.0,<2.61.0

• bioconductor-decipher >=2.20.0,<2.21.0

• bioconductor-sangerseqr >=1.28.0,<1.29.0

• r-ape

• r-base >=4.1,<4.2.0a0

• r-data.table

• r-dt

• r-excelr

• r-ggdendro

• r-gridextra

• r-kableextra

• r-logger

• r-openxlsx

• r-phangorn

• r-plotly

• r-reshape2

• r-rmarkdown

• r-seqinr

• r-shiny

• r-shinycssloaders

• r-shinydashboard

• r-shinyjs

• r-shinywidgets

• r-stringr

• r-zeallot

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-sangeranalyser

and update with:

conda update bioconductor-sangeranalyser

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-sangeranalyser:<tag>

(see bioconductor-sangeranalyser/tags for valid values for <tag>)

Download stats

Link to this page

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