Files in VCCRI/Sierra

PolyA counting and differential transcript usage analysis for scRNA-seq data

R/Annotate.R R/count_polyA.R R/data_util.R R/dataset_merging.R R/differential_usage.R R/plotting_functions.R R/split_bams.R README.md man/AggregatePeakCounts.Rd man/AnnotatePeaksFromGTF.Rd man/BaseComposition.Rd man/CountPeaks.Rd man/DUTest.Rd man/DetectAEU.Rd man/DetectUTRLengthShift.Rd man/FindPeaks.Rd man/GetExpressedPeaks.Rd man/GetRelativeExpression.Rd man/MergePeakCoordinates.Rd man/NewPeakSCE.Rd man/NewPeakSeurat.Rd man/PeakSeuratFromTransfer.Rd man/PlotCoverage.Rd man/PlotRelativeExpressionBox.Rd man/PlotRelativeExpressionTSNE.Rd man/PlotRelativeExpressionUMAP.Rd man/PlotRelativeExpressionViolin.Rd man/PlotUTRLengthShift.Rd man/ReadPeakCounts.Rd man/SelectGenePeaks.Rd man/SplitBam.Rd man/annotate_gr_from_gtf.Rd man/apply_DEXSeq_test_sce.Rd man/apply_DEXSeq_test_seurat.Rd man/do_arrow_plot.Rd man/fit_gaussian.Rd man/geneToGR.Rd man/gene_Labels.Rd man/generate_merged_peak_table.Rd man/generate_self_merged_peaks.Rd man/generate_self_similarity_table.Rd man/generate_similarity_table.Rd man/get_expressed_peaks_sce.Rd man/get_expressed_peaks_seurat.Rd man/get_relative_expression_sce.Rd man/get_relative_expression_seurat.Rd man/make_exons.Rd man/make_reference.Rd man/merge_bam_coverage.Rd man/relative_location.Rd man/rle_to_WIG.Rd vignettes/Sierra_vignette.rmd