Files in mdeber/BRGenomics
Tools for the Efficient Analysis of High-Resolution Genomics Data

.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
NEWS.md R/BRGenomics-package.R R/bootstrap_counts.R R/data.R R/data_import.R R/dataset_functions.R R/deseq_functions.R R/ndimensional_binning.R R/normalization.R R/roi_functions.R R/signal_counting.R R/spikein_functions.R R/utils.R README.Rmd README.md
_pkgdown.yml
data/PROseq.rda
data/PROseq_paired.rda
data/txs_dm6_chr4.rda
inst/extdata/PROseq_dm6_chr4.bam
inst/extdata/PROseq_dm6_chr4_minus.bedGraph
inst/extdata/PROseq_dm6_chr4_minus.bw
inst/extdata/PROseq_dm6_chr4_plus.bedGraph
inst/extdata/PROseq_dm6_chr4_plus.bw
inst/extdata/dm6_chr4chrM.2bit
inst/script/PROseq_data.R man/BRGenomics-package.Rd man/PROseq-data.Rd man/applyNFsGRanges.Rd man/binNdimensions.Rd man/bootstrap-signal-by-position.Rd man/genebodies.Rd man/getCountsByPositions.Rd man/getCountsByRegions.Rd man/getDESeqDataSet.Rd man/getDESeqResults.Rd man/getMaxPositionsBySignal.Rd man/getPausingIndices.Rd man/getSpikeInCounts.Rd man/getSpikeInNFs.Rd man/getStrandedCoverage.Rd man/import-functions.Rd man/import_bam.Rd man/intersectByGene.Rd man/makeGRangesBRG.Rd man/mergeGRangesData.Rd man/mergeReplicates.Rd man/subsampleBySpikeIn.Rd man/subsampleGRanges.Rd man/subsetRegionsBySignal.Rd man/tidyChromosomes.Rd man/txs_dm6_chr4.Rd tests/testthat.R tests/testthat/test_bootstrapping.R tests/testthat/test_data_import.R tests/testthat/test_deseq_functions.R tests/testthat/test_genebodies_transformByGene_fxns.R tests/testthat/test_getCounts_getPausingIndices.R tests/testthat/test_getMaxPositions.R tests/testthat/test_getStrandedCoverage_makeGRangesBPres.R tests/testthat/test_merging_subsampling_GRanges.R tests/testthat/test_ndim_binning.R tests/testthat/test_spikein_and_normalization.R tests/testthat/test_subsetRegionsBySignal.R vignettes/AnalyzingMultipleDatasets.Rmd vignettes/DESeq2WithGlobalPerturbations.Rmd vignettes/GettingStarted.Rmd vignettes/ImportingModifyingAnnotations.Rmd vignettes/ImportingProcessingData.Rmd vignettes/Overview.Rmd vignettes/ProfilePlotsAndBootstrapping.Rmd vignettes/SequenceExtraction.Rmd vignettes/SignalCounting.Rmd vignettes/SpikeInNormalization.Rmd
mdeber/BRGenomics documentation built on Aug. 3, 2024, 3:43 a.m.