Files in UofABioinformaticsHub/fastqcReports
Load FastqQC reports and other NGS related files

.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
R/AdapterContent.R R/AllGenerics.R R/Basic_Statistics.R R/FastqcData.R R/FastqcDataList.R R/FastqcFile.R R/FastqcFileList.R R/Kmer_Content.R R/Overrepresented_sequences.R R/Per_base_N_content.R R/Per_base_sequence_content.R R/Per_base_sequence_quality.R R/Per_sequence_GC_content.R R/Per_sequence_quality_scores.R R/Per_tile_sequence_quality.R R/PwfCols.R R/Sequence_Duplication_Levels.R R/Sequence_Length_Distribution.R R/TheoreticalGC.R R/Total_Deduplicated_Percentage.R R/Version.R R/aaa.R R/addPercent.R R/data.R R/emptyPlot.R R/exportOverrepresented.R R/extract.R R/fileName.R R/getColours.R R/getFastqcData.R R/getGcDistribution.R R/getSummary.R R/importBowtieLogs.R R/importDuplicationMetrics.R R/importHisat2Logs.R R/importStarLogs.R R/isCompressed.R R/makeDendrogram.R R/makeLabels.R R/makeSidebar.R R/maxAdapterContent.R R/path.R R/plotAdapterContent.R R/plotBaseQualities.R R/plotDuplicationLevels.R R/plotGcContent.R R/plotKmers.R R/plotNContent.R R/plotOverrepresentedSummary.R R/plotReadTotals.R R/plotSequenceContent.R R/plotSequenceLengthDistribution.R R/plotSequenceQualities.R R/plotSummary.R R/pwf.R R/readTotals.R R/renderDendro.R R/runFastQC.R R/scale_fill_pwf.R R/splitByTab.R R/validationFunctions.R R/writeHtmlReport.R README.md TODO.md
data/gcTheoretical.RData
inst/CITATION
inst/NEWS
inst/extdata/ATTG_R1_fastqc.zip
inst/extdata/ATTG_R2_fastqc.zip
inst/extdata/Athaliana.TAIR10.tRNA.fasta
inst/extdata/CCGC_R1_fastqc.zip
inst/extdata/CCGC_R2_fastqc.zip
inst/extdata/GACC_R1_fastqc.zip
inst/extdata/GACC_R2_fastqc.zip
inst/extdata/Sample1_Dedup_metrics.txt
inst/extdata/bowtie2PE.txt
inst/extdata/bowtie2SE.txt
inst/extdata/bowtiePE.txt
inst/extdata/bowtieSE.txt
inst/extdata/errorTestingFiles/completelyEmpty.zip
inst/extdata/errorTestingFiles/hello.txt.gz
inst/extdata/errorTestingFiles/moduleNamesNoData.zip
inst/extdata/exampleRNASeq_R1_fastqc/fastqc_data.txt
inst/extdata/exampleRNASeq_R1_fastqc/summary.txt
inst/extdata/exampleRNASeq_R2_fastqc/fastqc_data.txt
inst/extdata/exampleRNASeq_R2_fastqc/summary.txt
inst/extdata/hisat2PE.txt
inst/extdata/log.final.out
inst/extdata/ngsReports_Fastqc.Rmd man/Adapter_Content.Rd man/Basic_Statistics.Rd man/FastqcData-class.Rd man/FastqcDataList-class.Rd man/FastqcFile.Rd man/FastqcFileList.Rd man/Kmer_Content.Rd man/Overrepresented_sequences.Rd man/Per_base_N_content.Rd man/Per_base_sequence_content.Rd man/Per_base_sequence_quality.Rd man/Per_sequence_GC_content.Rd man/Per_sequence_quality_scores.Rd man/Per_tile_sequence_quality.Rd man/PwfCols-class.Rd man/Sequence_Duplication_Levels.Rd man/Sequence_Length_Distribution.Rd man/TheoreticalGC-class.Rd man/Total_Deduplicated_Percentage.Rd man/Version.Rd man/dot-addPercent.Rd man/dot-emptyPlot.Rd man/dot-hidePWFRects.Rd man/dot-isValidBowtieLog.Rd man/dot-isValidDuplicationMetrics.Rd man/dot-isValidHisat2Log.Rd man/dot-isValidStarLog.Rd man/dot-makeDendrogram.Rd man/dot-makeLabels.Rd man/dot-makeSidebar.Rd man/dot-renderDendro.Rd man/dot-splitByTab.Rd man/exportOverrepresented-methods.Rd man/extract-methods.Rd man/fileName-methods.Rd man/gcTheoretical.Rd man/genomes.Rd man/getColours-methods.Rd man/getFastqcData-methods.Rd man/getGC.Rd man/getGcDistribution-methods.Rd man/getSummary.Rd man/importBowtieLogs.Rd man/importDuplicationMetrics.Rd man/importHisat2Logs.Rd man/importStarLogs.Rd man/isCompressed.Rd man/mData.Rd man/maxAdapterContent.Rd man/path.Rd man/plotAdapterContent-methods.Rd man/plotBaseQualities-methods.Rd man/plotDuplicationLevels-methods.Rd man/plotGcContent-methods.Rd man/plotKmers-methods.Rd man/plotNContent-methods.Rd man/plotOverrepresentedSummary-methods.Rd man/plotReadTotals-methods.Rd man/plotSequenceContent-methods.Rd man/plotSequenceLengthDistribution-methods.Rd man/plotSequenceQualities-methods.Rd man/plotSummary-methods.Rd man/pwf.Rd man/readTotals.Rd man/runFastQC-methods.Rd man/scale_fill_pwf.Rd man/transcriptomes.Rd man/writeHtmlReport.Rd tests/testthat.R tests/testthat/test-FastqcFile.R tests/testthat/test-PwfCols.R tests/testthat/test-addPercent.R tests/testthat/test-emptyPlot.R tests/testthat/test-getModuleErrNulls.R tests/testthat/test-getModuleFunctions.R tests/testthat/test-getSummary.R tests/testthat/test-getTheoreticalGC.R tests/testthat/test-importLogs.R tests/testthat/test-isCompressed.R tests/testthat/test-makeDendrogram.R tests/testthat/test-makeLabels.R tests/testthat/test-makeSidebar.R tests/testthat/test-moduleMessages.R tests/testthat/test-renderDendro.R tests/testthat/test-runFastQC.R tests/testthat/test-splitByTab.R vignettes/ngsReportsIntroduction.R vignettes/ngsReportsIntroduction.Rmd
UofABioinformaticsHub/fastqcReports documentation built on Feb. 6, 2019, 5:58 a.m.