Files in jayhesselberth/valr
Genome Interval Arithmetic in R

.Rbuildignore
.codecov.yml
.github/ISSUE_TEMPLATE.md
.gitignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md R/RcppExports.R R/bed12_to_exons.r R/bed_absdist.r R/bed_closest.r R/bed_cluster.r R/bed_complement.r R/bed_coverage.R R/bed_fisher.r R/bed_flank.r R/bed_glyph.r R/bed_intersect.r R/bed_jaccard.r R/bed_makewindows.r R/bed_map.r R/bed_merge.r R/bed_projection.r R/bed_random.r R/bed_reldist.r R/bed_shift.r R/bed_shuffle.r R/bed_slop.r R/bed_sort.r R/bed_subtract.r R/bed_window.r R/db.r R/features.r R/globals.r R/read_bed.r R/read_genome.r R/read_vcf.r R/spacing.r R/strands.r R/tbls.r R/utils.r R/valr-package.r README.Rmd README.md
_pkgdown.yml
appveyor.yml
cran-comments.md
docs/LICENSE.html
docs/articles/benchmarks.html
docs/articles/img/benchmarks-benchmarks-1.png
docs/articles/img/interval-stats-ecfs-1.png
docs/articles/img/interval-stats-pvalue_viz-1.png
docs/articles/img/overview-intersect_glyph-1.png
docs/articles/img/overview-merge_glyph-1.png
docs/articles/img/overview-plot-1.png
docs/articles/index.html
docs/articles/interval-stats.html
docs/articles/interval-stats_files/datatables-binding-0.2/datatables.js
docs/articles/interval-stats_files/dt-core-1.10.12/css/jquery.dataTables.extra.css
docs/articles/interval-stats_files/dt-core-1.10.12/css/jquery.dataTables.min.css
docs/articles/interval-stats_files/dt-core-1.10.12/js/jquery.dataTables.min.js
docs/articles/interval-stats_files/htmlwidgets-0.9/htmlwidgets.js
docs/articles/interval-stats_files/jquery-1.12.4/LICENSE.txt
docs/articles/interval-stats_files/jquery-1.12.4/jquery.min.js
docs/articles/valr.html
docs/authors.html
docs/favicon.ico
docs/index.html
docs/jquery.sticky-kit.min.js
docs/link.svg
docs/logo.png
docs/man/figures/README-intersect_glyph-1.png
docs/news/index.html
docs/pkgdown.css
docs/pkgdown.js
docs/reference/as.tbl_genome.html
docs/reference/as.tbl_interval.html
docs/reference/bed12_to_exons.html
docs/reference/bed_absdist.html
docs/reference/bed_closest-1.png
docs/reference/bed_closest-2.png
docs/reference/bed_closest.html
docs/reference/bed_cluster-1.png
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docs/reference/bed_cluster.html
docs/reference/bed_complement-1.png
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docs/reference/bed_complement.html
docs/reference/bed_coverage.html
docs/reference/bed_fisher.html
docs/reference/bed_flank-1.png
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docs/reference/bed_intersect.html
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docs/reference/bed_makewindows-1.png
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docs/reference/bed_map-1.png
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docs/reference/bed_merge.html
docs/reference/bed_projection.html
docs/reference/bed_random.html
docs/reference/bed_reldist.html
docs/reference/bed_shift-1.png
docs/reference/bed_shift.html
docs/reference/bed_shuffle.html
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docs/reference/bed_slop.html
docs/reference/bed_sort.html
docs/reference/bed_subtract-1.png
docs/reference/bed_subtract.html
docs/reference/bed_window-1.png
docs/reference/bed_window.html
docs/reference/bound_intervals.html
docs/reference/create_introns.html
docs/reference/create_tss.html
docs/reference/create_utrs3.html
docs/reference/create_utrs5.html
docs/reference/db.html
docs/reference/figures/README-intersect_glyph-1.png
docs/reference/figures/logo.png
docs/reference/flip_strands.html
docs/reference/index.html
docs/reference/interval_spacing.html
docs/reference/is.tbl_genome.html
docs/reference/is.tbl_interval.html
docs/reference/read_bed.html
docs/reference/read_genome.html
docs/reference/read_vcf.html
docs/reference/tbl_genome.html
docs/reference/tbl_interval.html
docs/reference/valr.html
docs/reference/valr_example.html
docs/search.html
docs/search.js
docs/site-index.json
inst/CITATION
inst/extdata/12fields.bed.gz
inst/extdata/3fields.bed.gz
inst/extdata/6fields.bed.gz
inst/extdata/genes.hg19.chr22.bed.gz
inst/extdata/genome.txt.gz
inst/extdata/hela.h3k4.chip.bg.gz
inst/extdata/hg19.chrom.sizes.gz
inst/extdata/hg19.refGene.chr22.bed.gz
inst/extdata/hg19.rmsk.chr22.bed.gz
inst/extdata/hg19.snps147.chr22.bed.gz
inst/extdata/mm9.refGene.bed.gz
inst/extdata/sample.broadPeak.gz
inst/extdata/sample.narrowPeak.gz
inst/extdata/test.bg.gz
inst/extdata/test.vcf.gz
inst/include/DataFrameBuilder.h
inst/include/IntervalTree.h
inst/include/dplyr.h
inst/include/dplyr/BoolResult.h
inst/include/dplyr/CharacterVectorOrderer.h
inst/include/dplyr/Collecter.h
inst/include/dplyr/Column.h
inst/include/dplyr/DataFrameColumnSubsetVisitor.h
inst/include/dplyr/DataFrameColumnVisitor.h
inst/include/dplyr/DataFrameJoinVisitors.h
inst/include/dplyr/DataFrameSubsetVisitors.h
inst/include/dplyr/DataFrameVisitors.h
inst/include/dplyr/DataFrameVisitorsIndexMap.h
inst/include/dplyr/EmptySubset.h
inst/include/dplyr/FullDataFrame.h
inst/include/dplyr/Gatherer.h
inst/include/dplyr/GroupedDataFrame.h
inst/include/dplyr/Groups.h
inst/include/dplyr/Hybrid.h
inst/include/dplyr/HybridHandler.h
inst/include/dplyr/HybridHandlerMap.h
inst/include/dplyr/JoinVisitor.h
inst/include/dplyr/JoinVisitorImpl.h
inst/include/dplyr/MatrixColumnSubsetVectorVisitor.h
inst/include/dplyr/MatrixColumnVisitor.h
inst/include/dplyr/MultipleVectorVisitors.h
inst/include/dplyr/NamedListAccumulator.h
inst/include/dplyr/Order.h
inst/include/dplyr/OrderVisitor.h
inst/include/dplyr/OrderVisitorImpl.h
inst/include/dplyr/Replicator.h
inst/include/dplyr/Result/CallElementProxy.h
inst/include/dplyr/Result/CallProxy.h
inst/include/dplyr/Result/CallbackProcessor.h
inst/include/dplyr/Result/ConstantResult.h
inst/include/dplyr/Result/Count.h
inst/include/dplyr/Result/Count_Distinct.h
inst/include/dplyr/Result/CumMax.h
inst/include/dplyr/Result/CumMin.h
inst/include/dplyr/Result/CumSum.h
inst/include/dplyr/Result/DelayedProcessor.h
inst/include/dplyr/Result/GroupedCallProxy.h
inst/include/dplyr/Result/GroupedCallReducer.h
inst/include/dplyr/Result/GroupedHybridCall.h
inst/include/dplyr/Result/GroupedSubset.h
inst/include/dplyr/Result/GroupedSubsetBase.h
inst/include/dplyr/Result/ILazySubsets.h
inst/include/dplyr/Result/In.h
inst/include/dplyr/Result/Lag.h
inst/include/dplyr/Result/LazyGroupedSubsets.h
inst/include/dplyr/Result/LazyRowwiseSubsets.h
inst/include/dplyr/Result/LazySubsets.h
inst/include/dplyr/Result/Lead.h
inst/include/dplyr/Result/Mean.h
inst/include/dplyr/Result/MinMax.h
inst/include/dplyr/Result/Mutater.h
inst/include/dplyr/Result/Processor.h
inst/include/dplyr/Result/Rank.h
inst/include/dplyr/Result/Result.h
inst/include/dplyr/Result/RowwiseSubset.h
inst/include/dplyr/Result/Sd.h
inst/include/dplyr/Result/Sum.h
inst/include/dplyr/Result/Var.h
inst/include/dplyr/Result/VectorSliceVisitor.h
inst/include/dplyr/Result/all.h
inst/include/dplyr/Result/is_smaller.h
inst/include/dplyr/RowwiseDataFrame.h
inst/include/dplyr/SubsetVectorVisitor.h
inst/include/dplyr/SubsetVectorVisitorImpl.h
inst/include/dplyr/SummarisedVariable.h
inst/include/dplyr/VectorVisitor.h
inst/include/dplyr/VectorVisitorImpl.h
inst/include/dplyr/bad.h
inst/include/dplyr/checks.h
inst/include/dplyr/comparisons.h
inst/include/dplyr/config.h
inst/include/dplyr/dplyr.h
inst/include/dplyr/get_column.h
inst/include/dplyr/join_match.h
inst/include/dplyr/main.h
inst/include/dplyr/registration.h
inst/include/dplyr/subset_visitor.h
inst/include/dplyr/subset_visitor_impl.h
inst/include/dplyr/tbl_cpp.h
inst/include/dplyr/train.h
inst/include/dplyr/vector_class.h
inst/include/dplyr/visitor.h
inst/include/dplyr/visitor_impl.h
inst/include/dplyr/visitor_set/VisitorEqualPredicate.h
inst/include/dplyr/visitor_set/VisitorHash.h
inst/include/dplyr/visitor_set/VisitorSetEqual.h
inst/include/dplyr/visitor_set/VisitorSetEqualPredicate.h
inst/include/dplyr/visitor_set/VisitorSetGreater.h
inst/include/dplyr/visitor_set/VisitorSetHash.h
inst/include/dplyr/visitor_set/VisitorSetHasher.h
inst/include/dplyr/visitor_set/VisitorSetIndexMap.h
inst/include/dplyr/visitor_set/VisitorSetIndexSet.h
inst/include/dplyr/visitor_set/VisitorSetLess.h
inst/include/dplyr/visitor_set/VisitorSetMixin.h
inst/include/dplyr/visitor_set/visitor_set.h
inst/include/dplyr/white_list.h
inst/include/dplyr/workarounds.h
inst/include/dplyr/workarounds/static_assert.h
inst/include/dplyr/workarounds/xlen.h
inst/include/dplyr_RcppExports.h
inst/include/dplyr_types.h
inst/include/genome.h
inst/include/group_apply.h
inst/include/intervals.h
inst/include/random.h
inst/include/solaris/solaris.h
inst/include/tools/Call.h
inst/include/tools/Quosure.h
inst/include/tools/ShrinkableVector.h
inst/include/tools/SlicingIndex.h
inst/include/tools/SymbolMap.h
inst/include/tools/SymbolString.h
inst/include/tools/SymbolVector.h
inst/include/tools/all_na.h
inst/include/tools/collapse.h
inst/include/tools/debug.h
inst/include/tools/encoding.h
inst/include/tools/hash.h
inst/include/tools/match.h
inst/include/tools/pointer_vector.h
inst/include/tools/rlang-export.h
inst/include/tools/scalar_type.h
inst/include/tools/tools.h
inst/include/tools/utils.h
inst/include/tools/wrap_subset.h
inst/include/valr.h
man-roxygen/groups.R man-roxygen/stats.R man/as.tbl_genome.Rd man/as.tbl_interval.Rd man/bed12_to_exons.Rd man/bed_absdist.Rd man/bed_closest.Rd man/bed_cluster.Rd man/bed_complement.Rd man/bed_coverage.Rd man/bed_fisher.Rd man/bed_flank.Rd man/bed_glyph.Rd man/bed_intersect.Rd man/bed_jaccard.Rd man/bed_makewindows.Rd man/bed_map.Rd man/bed_merge.Rd man/bed_projection.Rd man/bed_random.Rd man/bed_reldist.Rd man/bed_shift.Rd man/bed_shuffle.Rd man/bed_slop.Rd man/bed_sort.Rd man/bed_subtract.Rd man/bed_window.Rd man/bound_intervals.Rd man/create_introns.Rd man/create_tss.Rd man/create_utrs3.Rd man/create_utrs5.Rd man/db.Rd
man/figures/README-intersect_glyph-1.png
man/figures/logo.png
man/flip_strands.Rd man/interval_spacing.Rd man/is.tbl_genome.Rd man/is.tbl_interval.Rd man/read_bed.Rd man/read_genome.Rd man/read_vcf.Rd man/tbl_genome.Rd man/tbl_interval.Rd man/valr.Rd man/valr_example.Rd
src/.gitignore
src/Makevars
src/Makevars.win
src/RcppExports.cpp
src/bed12toexons.cpp
src/closest.cpp
src/complement.cpp
src/coverage.cpp
src/dist.cpp
src/flank.cpp
src/init.c
src/intersect.cpp
src/makewindows.cpp
src/merge.cpp
src/random.cpp
src/shuffle.cpp
src/subtract.cpp
tests/testthat.R tests/testthat/helper-astyle.r tests/testthat/test-db.r tests/testthat/test-style.r tests/testthat/test_absdist.r tests/testthat/test_bed12_to_exons.r tests/testthat/test_closest.r tests/testthat/test_cluster.r tests/testthat/test_complement.r tests/testthat/test_coverage.r tests/testthat/test_features.r tests/testthat/test_fisher.r tests/testthat/test_flank.r tests/testthat/test_genome.r tests/testthat/test_glyph.r tests/testthat/test_intersect.r tests/testthat/test_jaccard.r tests/testthat/test_makewindows.r tests/testthat/test_map.r tests/testthat/test_merge.r tests/testthat/test_projection.r tests/testthat/test_random.r tests/testthat/test_read_bed.r tests/testthat/test_read_vcf.r tests/testthat/test_reldist.r tests/testthat/test_shift.r tests/testthat/test_shuffle.r tests/testthat/test_slop.r tests/testthat/test_sort.r tests/testthat/test_spacing.r tests/testthat/test_strands.r tests/testthat/test_subtract.r tests/testthat/test_tbls.r tests/testthat/test_utils.r tests/testthat/test_window.r
valr.Rproj
vignettes/.gitignore
vignettes/benchmarks.Rmd vignettes/interval-stats.Rmd vignettes/valr.Rmd
jayhesselberth/valr documentation built on Dec. 11, 2017, 6:56 a.m.