Files in saezlab/dorothea
Collection Of Human And Mouse TF Regulons
.Rbuildignore
.github/.gitignore
.github/workflows/check-bioc.yml
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md
R/data.R
R/dorothea-package.R
R/helpers.R
R/utils-pipe.R
R/viper_wrapper.R
README.md
_pkgdown.yml
codecov.yml
data/dorothea_hs.rda
data/dorothea_hs_pancancer.rda
data/dorothea_mm.rda
data/dorothea_mm_pancancer.rda
data/entire_database.rda
inst/CITATION
inst/extdata/README.md
inst/extdata/annotations/GarciaAlonso_supplemental_table_S1.xlsx
inst/extdata/annotations/gene_annotation.rds
inst/extdata/annotations/hgnc_mgi_annotation.rds
inst/extdata/annotations/hsa_uniprot_20180314.txt
inst/extdata/annotations/tf_annotation.rds
inst/extdata/annotations/uniprot_annotation.rds
inst/extdata/for_vignette/seurat_object.RDS
inst/extdata/networks/chip_seq/remap/network.rds
inst/extdata/networks/curated/fantom_4/network_with_pubmed.rds
inst/extdata/networks/curated/htri_db/network_with_pubmed.rds
inst/extdata/networks/curated/int_act/network_with_pubmed.rds
inst/extdata/networks/curated/kegg/network.rds
inst/extdata/networks/curated/nfi_regulome_db/network.rds
inst/extdata/networks/curated/oreganno/network_with_pubmed.rds
inst/extdata/networks/curated/pazar/network.rds
inst/extdata/networks/curated/reviews/network_with_pubmed.rds
inst/extdata/networks/curated/tf_act/network_with_pubmed.rds
inst/extdata/networks/curated/tf_e/network.rds
inst/extdata/networks/curated/tred_via_reg_network/network.rds
inst/extdata/networks/curated/trrd_via_tf_act/network.rds
inst/extdata/networks/curated/trrust/network_with_pubmed.rds
inst/extdata/networks/inferred/gtex/pantissue/network.rds
inst/extdata/networks/inferred/tcga/pancancer/network.rds
inst/extdata/networks/tfbs/hocomoco/network.rds
inst/extdata/networks/tfbs/jaspar/network.rds
inst/scripts/01_curated_resources.R
inst/scripts/02_chip_seq.R
inst/scripts/03_tfbs.R
inst/scripts/04_inferred.R
inst/scripts/05_consensus.R
inst/scripts/05_consensus_pancancer.R
inst/scripts/README.md
inst/scripts/misc.R
inst/scripts/utils.R
inst/testdata/output_matrix.rds
inst/testdata/output_matrix_tidy.rds
inst/testdata/output_sce.rds
inst/testdata/output_seurat.rds
inst/testdata/toy_dataframe.rds
inst/testdata/toy_eset.rds
inst/testdata/toy_matrix.rds
inst/testdata/toy_sce.rds
inst/testdata/toy_seurat.rds
man/df2regulon.Rd
man/dorothea-package.Rd
man/dorothea_hs.Rd
man/dorothea_hs_pancancer.Rd
man/dorothea_mm.Rd
man/dorothea_mm_pancancer.Rd
man/entire_database.Rd
man/figures/overview.png
man/figures/tool_logo.png
man/pipe.Rd
man/run_viper.Rd
tests/testthat.R
tests/testthat/test-helpers.R
tests/testthat/test-viper_wrapper.R
vignettes/dorothea.Rmd
