recipe bioconductor-fastqcleaner

A Shiny Application for Quality Control, Filtering and Trimming of FASTQ Files

Homepage

https://bioconductor.org/packages/3.12/bioc/html/FastqCleaner.html

License

MIT + file LICENSE

Recipe

/bioconductor-fastqcleaner/meta.yaml

An interactive web application for quality control, filtering and trimming of FASTQ files. This user-friendly tool combines a pipeline for data processing based on Biostrings and ShortRead infrastructure, with a cutting-edge visual environment. Single-Read and Paired-End files can be locally processed. Diagnostic interactive plots (CG content, per-base sequence quality, etc.) are provided for both the input and output files.

package bioconductor-fastqcleaner

Versions

1.8.0-0,  1.6.0-0,  1.4.0-0,  1.2.0-1,  1.0.0-0

Depends

• bioconductor-biostrings >=2.58.0,<2.59.0

• bioconductor-iranges >=2.24.0,<2.25.0

• bioconductor-s4vectors >=0.28.0,<0.29.0

• bioconductor-shortread >=1.48.0,<1.49.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=7.5.0

• liblapack >=3.8.0,<4.0a0

• libstdcxx-ng >=7.5.0

• r-base >=4.0,<4.1.0a0

• r-dt

• r-htmltools

• r-rcpp >=0.12.12

• r-shiny

• r-shinybs

Required By

Installation

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

conda install bioconductor-fastqcleaner

and update with:

conda update bioconductor-fastqcleaner

or use the docker container:

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

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

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-fastqcleaner/README.html)