Files in sfilges/umiAnalyzer
Tools for Analyzing Sequencing Data with Unique Molecular Identifiers
.Rbuildignore
.github/workflows/R-CMD-check.yaml
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md
R/alignment.R
R/classes.R
R/import.R
R/legacy.R
R/runUmiVisualizer.R
R/simsen-data.R
R/utilities.R
R/variant_caller.R
R/visualization.R
README.md
cran-comments.md
dev/check_cran.R
dev/create_logo.R
dev/logo-image.png
inst/extdata/VAF-1-5ng-1-10x/VAF-1-5ng-1-10x.cons
inst/extdata/VAF-1-5ng-1-10x/VAF-1-5ng-1-10x.hist
inst/extdata/VAF-1-5ng-1-10x/VAF-1-5ng-1-10x_consensus_reads.bam
inst/extdata/VAF-1-5ng-1-10x/VAF-1-5ng-1-10x_consensus_reads.bam.bai
inst/extdata/VAF-1-5ng-1-10x/VAF-1-5ng-1-10x_summary_statistics.txt
inst/extdata/VAF-1-5ng-1-10x/VAF-1-5ng-1-10x_target_coverage.txt
inst/extdata/WT-5ng-1-10x/WT-5ng-1-10x.cons
inst/extdata/WT-5ng-1-10x/WT-5ng-1-10x.hist
inst/extdata/WT-5ng-1-10x/WT-5ng-1-10x_consensus_reads.bam
inst/extdata/WT-5ng-1-10x/WT-5ng-1-10x_consensus_reads.bam.bai
inst/extdata/WT-5ng-1-10x/WT-5ng-1-10x_summary_statistics.txt
inst/extdata/WT-5ng-1-10x/WT-5ng-1-10x_target_coverage.txt
inst/extdata/metadata.csv
inst/extdata/metadata.tsv
inst/extdata/metadata.txt
inst/extdata/simple.bed
inst/extdata/simple.vcf
inst/shiny/report.Rmd
inst/shiny/server.R
inst/shiny/ui.R
inst/shiny/user_guide.Rmd
man/AmpliconHeatmap.Rd
man/AmpliconPlot.Rd
man/BarcodeFamilyHistogram.Rd
man/QCplot.Rd
man/UMIexperiment-class.Rd
man/UMIsample-class.Rd
man/UmiCountsPlot.Rd
man/addMetaData.Rd
man/addUmiSample.Rd
man/beta_binom.Rd
man/callVariants.Rd
man/createUMIexperiment_Debarcer.Rd
man/createUMIsample_Debarcer.Rd
man/createUmiExperiment.Rd
man/createUmiSample.Rd
man/download_template.Rd
man/figures/logo.png
man/filterUmiObject.Rd
man/filterVariants.Rd
man/findConsensusReads.Rd
man/generateVCF.Rd
man/getFilteredData.Rd
man/getMetaData.Rd
man/importBedFile.Rd
man/importDesign.Rd
man/mergeAssays.Rd
man/parseBamFiles.Rd
man/runUmiVisualizer.Rd
man/saveConsData.Rd
man/simsen.Rd
man/timeSeriesGrid.Rd
vignettes/vignette.R
vignettes/vignette.Rmd
vignettes/vignette.html
