Files in dozmorovlab/HiCcompare
HiCcompare: Joint normalization and comparative analysis of multiple Hi-C datasets
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
NEWS
R/Cournac_normalization.R
R/HMEC.chr10.R
R/HMEC.chr22.R
R/HiCcompare.r
R/KRnormalization.R
R/MA_norm.R
R/NHEK.chr10.R
R/NHEK.chr22.R
R/brain_table.R
R/centromere_locations.R
R/cooler.R
R/cooler2bedpe.R
R/create_hic_table.R
R/filter_params.R
R/get_CNV.txt
R/hg19_blacklist.R
R/hg38_blacklist.R
R/hic_compare.R
R/hic_diff.R
R/hic_loess.R
R/hic_simulate.R
R/hicpro2bedpe.R
R/hmec.IS.R
R/make_InteractionSet.R
R/manhattan_plot.R
R/matrix_transformations.R
R/nhek.IS.R
R/plot_functions.R
R/remove_centromere.R
R/sim_matrix.R
R/split_centromere.R
R/total_sum.R
R/visualize_pvals.R
R/volcano.R
README.md
data/HMEC.chr10.rda
data/HMEC.chr22.rda
data/NHEK.chr10.rda
data/NHEK.chr22.rda
data/brain_table.rda
data/centromere_locations.rda
data/cooler.rda
data/hg19_blacklist.rda
data/hg38_blacklist.rda
data/hmec.IS.rda
data/nhek.IS.rda
inst/CITATION
man/HMEC.chr10.Rd
man/HMEC.chr22.Rd
man/HiCcompare-package.Rd
man/KRnorm.Rd
man/MA_norm.Rd
man/MD.plot1.Rd
man/MD.plot2.Rd
man/NHEK.chr10.Rd
man/NHEK.chr22.Rd
man/SCN.Rd
man/brain_table.Rd
man/centromere_locations.Rd
man/cooler.Rd
man/cooler2bedpe.Rd
man/cooler2sparse.Rd
man/create.hic.table.Rd
man/filter_params.Rd
man/full2sparse.Rd
man/hg19_blacklist.Rd
man/hg38_blacklist.Rd
man/hic_compare.Rd
man/hic_diff.Rd
man/hic_loess.Rd
man/hic_simulate.Rd
man/hicpro2bedpe.Rd
man/hmec.IS.Rd
man/make_InteractionSet.Rd
man/manhattan_plot.Rd
man/nhek.IS.Rd
man/remove_centromere.Rd
man/sim.other.methods.Rd
man/sim_matrix.Rd
man/sparse2full.Rd
man/split_centromere.Rd
man/total_sum.Rd
man/visualize_pvals.Rd
tests/testthat.R
tests/testthat/test_create_hic_table.R
tests/testthat/test_hic_loess_input.R
tests/testthat/test_matrix_transformations.R
tests/testthat/test_pipeline_works.R
vignettes/HiCcompare-vignette.Rmd
