Files in CompEpigen/methrix
Fast and efficient summarization of generic bedGraph files from Bisufite sequencing
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
NEWS
R/accessory_funcs.R
R/accessory_funcs_2.R
R/check_bins.R
R/extract_CpGs.R
R/methrix_data.R
R/methrix_object.R
R/methrix_operations.R
R/methrix_plot.R
R/methrix_report.R
R/read_bedgraphs.R
R/snp_removal.R
R/write_bedgraphs.R
R/write_bigwigs.R
README.md
data/methrix_data.rda
inst/CITATION
inst/extdata/C1.bedGraph.gz
inst/extdata/C2.bedGraph.gz
inst/extdata/N1.bedGraph.gz
inst/extdata/N2.bedGraph.gz
inst/extdata/bdg2bw.sh
inst/report/custom.css
inst/report/logo_large_hexagon.gif
inst/report/summarize_methrix.Rmd
inst/script/data_generation.R
man/combine_methrix.Rd
man/convert_HDF5_methrix.Rd
man/convert_methrix.Rd
man/coverage_filter.Rd
man/extract_CPGs.Rd
man/get_matrix.Rd
man/get_region_summary.Rd
man/get_stats.Rd
man/load_HDF5_methrix.Rd
man/mask_methrix.Rd
man/methrix-class.Rd
man/methrix2bsseq.Rd
man/methrix_data.Rd
man/methrix_pca.Rd
man/methrix_report.Rd
man/order_by_sd.Rd
man/plot_coverage.Rd
man/plot_density.Rd
man/plot_pca.Rd
man/plot_stats.Rd
man/plot_violin.Rd
man/read_bedgraphs.Rd
man/region_filter.Rd
man/remove_snps.Rd
man/remove_uncovered.Rd
man/save_HDF5_methrix.Rd
man/subset_methrix.Rd
man/write_bedgraphs.Rd
man/write_bigwigs.Rd
tests/testthat.R
tests/testthat/test-combine_methrix.R
tests/testthat/test-converting.R
tests/testthat/test-coverage_filter.R
tests/testthat/test-extract_CPGs.R
tests/testthat/test-get_matrix.R
tests/testthat/test-get_region_summary.R
tests/testthat/test-mask_methrix.R
tests/testthat/test-region_filter.R
tests/testthat/test-remove_uncovered.R
tests/testthat/test-subset_methrix.R
vignettes/.gitignore
vignettes/logo_large_hexagon.gif
vignettes/methrix.Rmd
vignettes/overview.png
