Rqc: Quality Control Tool for High-Throughput Sequencing Data

Rqc is an optimised tool designed for quality control and assessment of high-throughput sequencing data. It performs parallel processing of entire files and produces a report which contains a set of high-resolution graphics.

AuthorWelliton Souza, Benilton Carvalho <beniltoncarvalho@gmail.com>
Date of publicationNone
MaintainerWelliton Souza <well309@gmail.com>
LicenseGPL (>= 2)
Version1.8.0
https://github.com/labbcb/Rqc

View on Bioconductor

Functions

checkpoint Man page
detectFileFormat Man page
fromRRDNA Man page
matdist Man page
perCycleBasecall Man page
perCycleBasecall,list-method Man page
perCycleBasecall,RqcResultSet-method Man page
perCycleQuality Man page
perCycleQuality,list-method Man page
perCycleQuality,RqcResultSet-method Man page
perFileInformation Man page
perFileInformation,list-method Man page
perFileInformation,RqcResultSet-method Man page
perFileTopReads Man page
perFileTopReads,list-method Man page
perFileTopReads,RqcResultSet-method Man page
perReadFrequency Man page
perReadFrequency,list-method Man page
perReadFrequency,RqcResultSet-method Man page
perReadQuality Man page
perReadQuality,list-method Man page
perReadQuality,RqcResultSet-method Man page
perReadWidth Man page
perReadWidth,list-method Man page
perReadWidth,RqcResultSet-method Man page
rqc Man page
Rqc Man page
rqcCycleAverageQualityCalc Man page
rqcCycleAverageQualityPcaCalc Man page
rqcCycleAverageQualityPcaPlot Man page
rqcCycleAverageQualityPlot Man page
rqcCycleBaseCallsCalc Man page
rqcCycleBaseCallsLinePlot Man page
rqcCycleBaseCallsPlot Man page
rqcCycleGCCalc Man page
rqcCycleGCPlot Man page
rqcCycleQualityBoxCalc Man page
rqcCycleQualityBoxPlot Man page
rqcCycleQualityCalc Man page
rqcCycleQualityPlot Man page
rqcFileHeatmap Man page
rqcGroupCycleAverageQualityCalc Man page
rqcGroupCycleAverageQualityPlot Man page
Rqc-package Man page
rqcQA Man page
rqcQA,BamFile-method Man page
rqcQA,character-method Man page
rqcQA,FastqFile-method Man page
rqcQA,list-method Man page
rqcReadFrequencyCalc Man page
rqcReadFrequencyPlot Man page
rqcReadQualityBoxCalc Man page
rqcReadQualityBoxPlot Man page
rqcReadQualityCalc Man page
rqcReadQualityPlot Man page
rqcReadWidthCalc Man page
rqcReadWidthPlot Man page
rqcReport Man page
RqcResultSet-class Man page
rqcShinyReport Man page
stats4trim Man page
subsetByGroup Man page
subsetByPair Man page
toRRDNA Man page

Files

Rqc/DESCRIPTION
Rqc/NAMESPACE
Rqc/NEWS
Rqc/R
Rqc/R/RcppExports.R Rqc/R/Rqc-package.R Rqc/R/RqcResultSet.R Rqc/R/checkpoint.R Rqc/R/detectFileFormat.R Rqc/R/rqc.R Rqc/R/rqcCycleAverageQualityCalc.R Rqc/R/rqcCycleAverageQualityPcaCalc.R Rqc/R/rqcCycleAverageQualityPcaPlot.R Rqc/R/rqcCycleAverageQualityPlot.R Rqc/R/rqcCycleBaseCallsCalc.R Rqc/R/rqcCycleBaseCallsLinePlot.R Rqc/R/rqcCycleBaseCallsPlot.R Rqc/R/rqcCycleGCCalc.R Rqc/R/rqcCycleGCPlot.R Rqc/R/rqcCycleQualityBoxCalc.R Rqc/R/rqcCycleQualityBoxPlot.R Rqc/R/rqcCycleQualityCalc.R Rqc/R/rqcCycleQualityPlot.R Rqc/R/rqcFileHeatmap.R Rqc/R/rqcGroupCycleAverageQualityCalc.R Rqc/R/rqcGroupCycleAverageQualityPlot.R Rqc/R/rqcQA-methods.R Rqc/R/rqcReadFrquencyCalc.R Rqc/R/rqcReadFrquencyPlot.R Rqc/R/rqcReadQualityBoxCalc.R Rqc/R/rqcReadQualityBoxPlot.R Rqc/R/rqcReadQualityCalc.R Rqc/R/rqcReadQualityPlot.R Rqc/R/rqcReadWidthCalc.R Rqc/R/rqcReadWidthPlot.R Rqc/R/rqcReport.R Rqc/R/rqcShinyReport.R Rqc/R/stats4trim.R Rqc/R/subsetByGroup.R Rqc/R/subsetByPair.R Rqc/R/utils.R
Rqc/README.md
Rqc/build
Rqc/build/vignette.rds
Rqc/inst
Rqc/inst/doc
Rqc/inst/doc/Rqc.R
Rqc/inst/doc/Rqc.Rmd
Rqc/inst/doc/Rqc.html
Rqc/inst/extdata
Rqc/inst/extdata/Rqc.rda
Rqc/inst/templates
Rqc/inst/templates/rqc_report.Rmd
Rqc/man
Rqc/man/Rqc-package.Rd Rqc/man/RqcResultSet-class.Rd Rqc/man/checkpoint.Rd Rqc/man/detectFileFormat.Rd Rqc/man/fromRRDNA.Rd Rqc/man/matdist.Rd Rqc/man/rqc.Rd Rqc/man/rqcCycleAverageQualityPcaPlot.Rd Rqc/man/rqcCycleAverageQualityPlot.Rd Rqc/man/rqcCycleBaseCallsPlot.Rd Rqc/man/rqcCycleGCPlot.Rd Rqc/man/rqcCycleQualityBoxPlot.Rd Rqc/man/rqcCycleQualityPlot.Rd Rqc/man/rqcFileHeatmap.Rd Rqc/man/rqcGroupCycleAverageQualityPlot.Rd Rqc/man/rqcQA.Rd Rqc/man/rqcReadFrequencyPlot.Rd Rqc/man/rqcReadQualityBoxPlot.Rd Rqc/man/rqcReadQualityPlot.Rd Rqc/man/rqcReadWidthPlot.Rd Rqc/man/rqcReport.Rd Rqc/man/rqcShinyReport.Rd Rqc/man/stats4trim.Rd Rqc/man/subsetByGroup.Rd Rqc/man/subsetByPair.Rd Rqc/man/toRRDNA.Rd
Rqc/src
Rqc/src/RRDNA.cpp
Rqc/src/RcppExports.cpp
Rqc/tests
Rqc/tests/testthat
Rqc/tests/testthat.R
Rqc/tests/testthat/test_merge.R
Rqc/tests/testthat/test_rrdna.R
Rqc/vignettes
Rqc/vignettes/Rqc.Rmd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.