Files in tanaylab/shaman
shaman - Sampling HiC contAct Matrices for Aparametric Normalization
.gitattributes
.gitignore
DESCRIPTION
NAMESPACE
R/RcppExports.R
R/data.R
R/params.R
R/shaman-package.r
R/shaman.R
R/shaman_conf.R
R/shaman_feature_grid.R
R/shaman_plot_map.R
R/zzz.R
README.Rmd
README.md
_pkgdown.yml
data/ctcf_forward.rda
data/ctcf_reverse.rda
inst/config/shaman.conf
inst/doc/shaman-package.R
inst/doc/shaman-package.Rmd
inst/doc/shaman-package.html
inst/extdata/example_data.txt
inst/perl/hic_merge_ks.pl
inst/trackdb.tar.gz
man/ctcf_forward.Rd
man/ctcf_reverse.Rd
man/dot-shaman_dump_config.Rd
man/dot-shaman_load_config.Rd
man/get_param.Rd
man/get_param_list.Rd
man/init_params.Rd
man/shaman.Rd
man/shaman_generate_feature_grid.Rd
man/shaman_get_test_track_db.Rd
man/shaman_gplot_map.Rd
man/shaman_gplot_map_score.Rd
man/shaman_kk_norm.Rd
man/shaman_plot_feature_grid.Rd
man/shaman_plot_map_score_with_annotations.Rd
man/shaman_plot_tracks_and_annotations.Rd
man/shaman_score_hic_mat.Rd
man/shaman_score_hic_mat_for_track.Rd
man/shaman_score_hic_points.Rd
man/shaman_score_hic_track.Rd
man/shaman_score_pal.Rd
man/shaman_shuffle_and_score_hic_mat.Rd
man/shaman_shuffle_hic_mat_for_track.Rd
man/shaman_shuffle_hic_track.Rd
shaman.Rproj
src/ContactShuffler.cpp
src/ContactShuffler.h
src/GenomeGridLog.cpp
src/GenomeGridLog.h
src/MathUtils.h
src/Parser.cpp
src/Parser.h
src/Random.cpp
src/Random.h
src/RcppExports.cpp
src/VectorUtils.h
src/hic_matrix_shuffler.cpp
src/macro.h
vignettes/fig2.hoxd.example.png
vignettes/hic.K562.ela_k562.ctcf_neg.ctcf_pos.1k.png
vignettes/import.Rmd
vignettes/shaman-package.Rmd
vignettes/shaman-package.html
