Files in bips-hb/rgp
Identification of Risk Groups in Pharmacovigilance Using Penalized Regression and Machine Learning (RGP)
.Rbuildignore
.Rhistory
.gitignore
DESCRIPTION
NAMESPACE
R/data.R
R/ftarget_db_manager.R
R/ftarget_helpers.R
R/ftarget_ttd_manager.R
R/logger.R
R/realdata_cohort_helpers.R
R/realdata_prep_data_analysis_wrappers.R
R/sim_create_cohort.R
R/sim_create_groups_seperate_overlap_v2.R
R/sim_helpers.R
README.md
analysis/1_define_study_variables.R
analysis/2_define_outcome.R
analysis/3_matching_and_binary_matrix.R
analysis/4_run_lasso.R
analysis/5_run_blockforest.R
analysis/6_run_randomforest.R
analysis/8_run_nglasso.R
analysis/9_run_artp.R
analysis/bf_tuning.R
analysis/tableone.R
analysis/transform_ttd_pathways_to_groups.R
data/cluster_size.rda
data/kegg_clean_data/drug_atc_path.rda
data/kegg_clean_data/drug_disease_target_boolean_matrix.rda
data/kegg_clean_data/ds_icd_path.rda
data/kegg_clean_data/pathway_dr_ds_key_value.rda
data/ttd_clean_data/ttd_disease_target_m.rda
data/ttd_clean_data/ttd_drug_disease_m.rda
data/ttd_clean_data/ttd_drug_target_m.rda
data/ttd_clean_data/ttd_pathways.Rds
data/ttd_clean_data/ttd_pathways_doac.Rds
inst/extdata/Paper13_events.csv
inst/extdata/icd10_2016/icd10gm2016syst.txt
inst/extdata/icd10_2016/icd10who2016syst_kodes.txt
inst/extdata/icd10_2017/icd10cm_codes_2017.txt
inst/extdata/icd10_2017/icd10gm2017syst.txt
inst/extdata/icd10_2017/icd10gm2017syst_kodes.txt
inst/extdata/icd10_2017/icd10gm2017syst_umsteiger_2016_2017.txt
inst/extdata/icd_extra/2017-ICD-10-CM-Conversion-Table-.zip
inst/extdata/icd_extra/2017-ICD10-Code-Tables-Index.zip
inst/extdata/icd_extra/icd10cm_2017.rda
inst/extdata/icd_extra/icdClaML2016ens/ClaML.dtd
inst/extdata/icd_extra/icdClaML2016ens/icdClaML2016ens.xml
inst/extdata/icd_extra/icd_10_cm_mappings2017.csv
inst/extdata/kegg/drug2atc.txt
inst/extdata/kegg/drug2atc2path.txt
inst/extdata/kegg/ds2dr.txt
inst/extdata/kegg/ds2dr_icd2atc.txt
inst/extdata/kegg/ds2icd.txt
inst/extdata/kegg/ds2icd2path.txt
inst/extdata/kegg/icd2atc.txt
inst/extdata/ttd/P1-01-TTD_download.txt
inst/extdata/ttd/P1-02-TTD_crossmatching.txt
inst/extdata/ttd/P1-04-Drug_disease.txt
inst/extdata/ttd/P1-05-Target_disease.txt
inst/extdata/ttd/P4-01-Target-KEGGpathway_all.txt
inst/extdata/ttd/P4-02-Target-KEGGpathway_succ.txt
inst/extdata/ttd/TTD.db
inst/extdata/ttd/bkp/TTD.db
inst/extdata/ttd/bkp/cm/ttd_disease_target_m_cm.rda
inst/extdata/ttd/bkp/cm/ttd_drug_disease_m_cm.rda
inst/extdata/ttd/bkp/gm/ttd_disease_target_m.rda
inst/extdata/ttd/bkp/gm/ttd_drug_disease_m.rda
inst/extdata/ttd/bkp/ttd_drug_target_m.rda
inst/extdata/ttd/load_data.sh
inst/extdata/ttd/ttd_disease_target_m.rda
inst/extdata/ttd/ttd_drug_disease_m.rda
inst/extdata/ttd/ttd_drug_target_m.rda
man/cluster_size.Rd
man/create_boolean_matrix.Rd
man/create_cohort.Rd
man/create_groups.Rd
man/create_groups_leg.Rd
man/create_square_matrix.Rd
man/dr2path.Rd
man/drug2atc2target.Rd
man/ds2icd.Rd
man/ds2icd2target.Rd
man/find_intercept_iter.Rd
man/kegg_merge.Rd
man/matrix_to_collapsed_dt.Rd
man/parse_br08410.Rd
man/source2target.Rd
rgp.Rproj
