Files in ananata/fastq2otu
FASTQ2OTU: Automate microbiome analyses
.Rhistory
DESCRIPTION
LICENSE
NAMESPACE
R/assignSeqTaxonomy.R
R/filtTrim.R
R/getMeanQualityProfile.R
R/getSeqs.R
R/mergeSamples.R
R/mergeSeqPairs.R
R/plotQuality.R
R/plotSeqOverlap.R
R/readConfig.R
R/removeChimeras.R
R/runPipeline.R
R/saveSeqs.R
R/saveTaxonomyTables.R
R/setup.R
R/trimAdapters.R
README.md
fastq2otu.Rproj
inst/bash/reformat_fastq.sh
inst/bash/retrieve_sra_sequences.sh
inst/data/primerReference.RData
inst/examples/.Rhistory
inst/examples/paired/.gitignore
inst/examples/paired/paired-example_config.yml
inst/examples/single/single-example_config.yml
man/assignSeqTaxonomy.Rd
man/check_assign_tax.Rd
man/check_fastPaired.Rd
man/check_fastSingle.Rd
man/check_fastq2otu.Rd
man/check_filt_params.Rd
man/check_primer_trim.Rd
man/check_seq_dump.Rd
man/fastAssignTaxa-class.Rd
man/fastFilter-class.Rd
man/fastPaired-class.Rd
man/fastPlotQuality-class.Rd
man/fastPrimerTrim-class.Rd
man/fastReport-class.Rd
man/fastSeqDump-class.Rd
man/fastSingle-class.Rd
man/fastq2otu-class.Rd
man/filtTrim.Rd
man/getMeanQualityProfile.Rd
man/getSeqs.Rd
man/mergeSamples.Rd
man/plotQuality.Rd
man/plotSeqOverlap.Rd
man/plot_quality.Rd
man/readConfig.Rd
man/removeChimeras.Rd
man/runPipeline.Rd
man/saveSeqs.Rd
man/saveTaxonomyTables.Rd
man/setFastAssignTaxa.Rd
man/setFastFilter.Rd
man/setFastPaired.Rd
man/setFastPrimerTrim.Rd
man/setFastReport.Rd
man/setFastSeqDump.Rd
man/setFastSingle.Rd
man/setfastPlotQuality.Rd
man/trimAdapters.Rd
tests/testthat/.RData
tests/testthat/.Rhistory
tests/testthat/test-assignSeqTaxonomy.R
tests/testthat/test-getSeqs.R
tests/testthat/test-plotQuality.R
tests/testthat/test-readConfig.R
tests/testthat/test-runPipeline.R
tests/testthat/testthat.R
