Files in PublicHealthEngland/hcaidcs
R functions for the mandatory surveillance of bacteraemia and C. difficile infection

.Rbuildignore
.gitignore
.travis.yml
CODE_OF_CONDUCT.md CONTRIBUTING.md
DESCRIPTION
NAMESPACE
NEWS.md R/aec_age_sex_plot.R R/aec_age_trends_plots.R R/aec_create_folder_structure.R R/aec_ec_primary_focus_plot.R R/aec_inpatient.R R/aec_subregion_plot.R R/aec_tto_plot.R R/ann_tab_ccg_names.R R/ann_tab_onset.R R/ann_tab_pir_org_type.R R/apportion.R R/apportion_prior_healthcare.R R/area_team_names.R R/assignment_algorithm.R R/change.R R/check_date_class.R R/cmonth_to_fmonth.R R/cq_long.R R/cyear_to_cq.R R/cyear_to_fyear.R R/data.R R/data_compare.R R/date_end_period.R R/date_start_period.R R/date_to_fmonth.R R/date_to_fq.R R/date_to_fyear.R R/days_in_cyear.R R/days_in_fmonth.R R/days_in_fq.R R/days_in_fy.R R/dcs_denom_boilerplate.R R/detach_hcaidcs.R R/first_wednesday.R R/fq5.R R/fq_long.R R/fq_short.R R/fq_to_cq.R R/fq_to_fyear.R R/fy_long.R R/fy_long_short.R R/fy_short.R R/fy_six.R R/fyear_to_cyear.R R/fyear_to_fq.R R/group_source_bacteraemia.R R/group_tto_bacteraemia.R R/group_tto_cdi.R R/is_sch.R R/is_third_party.R R/kh03_boilerplate.R R/kh03_year.R R/klebsiella_sp_group.R R/mandatory_age.R R/mandatory_age_group.R R/mandatory_age_group_bacteraemia.R R/mandatory_age_group_cdi.R R/mf_fig1_fun.R R/mo_curr_months.R R/mo_gnabsi_table.R R/mo_next_pub_date.R R/mo_prior_hc_table.R R/mo_pub_date.R R/mo_std_table.R R/month_to_string.R R/mrsa_source_bacteraemia.R R/ordered_fin_qtr.R R/ordered_m_y.R R/patloc_for_pir_assignment.R R/pir_org_type.R R/popn_boilerplate.R R/provis_orgname.R R/qec_age_table.R R/show_hcaidcs_package_manual.R R/time_period2fyear.R R/time_to_onset.R R/up_or_down.R R/update_orgs_dcs.R R/zzz.R README.Rmd README.md
_pkgdown.yml
codecov.yml
data-raw/area_team_geo_prep.R data-raw/geo_prep.R data-raw/prep_age_trends.R data-raw/prep_assignment_data.R data-raw/prep_mf_trend_data.R data-raw/prep_monthly_ccg_data_raw.R
data/age_trends_data.rda
data/assignment_data.rda
data/assignment_data2.rda
data/at_sp_df.RData
data/at_sp_df.rda
data/cdi_prior_hc_data.rda
data/mf_trend_data.rda
data/monthly_ccg_data_raw.rda
data/subregions_sp_df.rda
docs/CODE_OF_CONDUCT.html
docs/CONTRIBUTING.html
docs/authors.html
docs/docsearch.css
docs/index.html
docs/jquery.sticky-kit.min.js
docs/link.svg
docs/news/index.html
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/aec_age_sex_plot.html
docs/reference/aec_age_trend_pc-1.png
docs/reference/aec_age_trend_pc.html
docs/reference/aec_age_trend_rate-1.png
docs/reference/aec_age_trend_rate.html
docs/reference/aec_age_trend_rate_pc_change-1.png
docs/reference/aec_age_trend_rate_pc_change.html
docs/reference/aec_create_folder_structure.html
docs/reference/aec_ec_source_plot.html
docs/reference/aec_inpatient.html
docs/reference/aec_subregion_plot.html
docs/reference/aec_tto_plot.html
docs/reference/age_trends_data.html
docs/reference/ann_tab_ccg_names.html
docs/reference/ann_tab_onset_annual.html
docs/reference/ann_tab_onset_qtrly.html
docs/reference/ann_tab_pir_org_type.html
docs/reference/ann_tab_pir_quarterly.html
docs/reference/apportion.html
docs/reference/apportion_prior_healthcare.html
docs/reference/area_team_names.html
docs/reference/assignment_algorithm.html
docs/reference/assignment_data.html
docs/reference/assignment_data2.html
docs/reference/at_sp_df.html
docs/reference/cal_q_long.html
docs/reference/cdi_prior_hc_data.html
docs/reference/change.html
docs/reference/check_date_class.html
docs/reference/cmonth_to_fmonth.html
docs/reference/cmonth_to_string.html
docs/reference/collapse_select.html
docs/reference/cyear_to_cq.html
docs/reference/cyear_to_fyear.html
docs/reference/data_compare.html
docs/reference/date_end_period.html
docs/reference/date_start_period.html
docs/reference/date_to_fmonth.html
docs/reference/date_to_fq.html
docs/reference/date_to_fyear.html
docs/reference/days_in_cy.html
docs/reference/days_in_fmonth.html
docs/reference/days_in_fq.html
docs/reference/days_in_fy.html
docs/reference/dcs_cols_lookup.html
docs/reference/dcs_popn_boilerplate.html
docs/reference/detach_hcaidcs.html
docs/reference/ecoli_primary_focus.html
docs/reference/first_wednesday.html
docs/reference/fmonth_to_string.html
docs/reference/fq5.html
docs/reference/fq_long.html
docs/reference/fq_short.html
docs/reference/fq_short_to_date.html
docs/reference/fq_to_cq.html
docs/reference/fq_to_fyear.html
docs/reference/fy_long.html
docs/reference/fy_long_short.html
docs/reference/fy_short.html
docs/reference/fy_six.html
docs/reference/fy_six_to_long.html
docs/reference/fyear_to_cyear.html
docs/reference/fyear_to_fq.html
docs/reference/fyq_to_fq.html
docs/reference/group_source_bacteraemia.html
docs/reference/group_tto_bacteraemia.html
docs/reference/group_tto_cdi.html
docs/reference/index.html
docs/reference/is_sch.html
docs/reference/is_third_party.html
docs/reference/kh03_boilerplate.html
docs/reference/kh03_year.html
docs/reference/klebsiella_sp_group.html
docs/reference/mandatory_age.html
docs/reference/mandatory_age_group.html
docs/reference/mandatory_age_group_bacteraemia.html
docs/reference/mandatory_age_group_cdi.html
docs/reference/mf_fig1_fun-1.png
docs/reference/mf_fig1_fun-2.png
docs/reference/mf_fig1_fun-3.png
docs/reference/mf_fig1_fun-4.png
docs/reference/mf_fig1_fun.html
docs/reference/mf_trend_data.html
docs/reference/mo_curr_months.html
docs/reference/mo_gnabsi_table.html
docs/reference/mo_next_pub_date.html
docs/reference/mo_prior_hc_table.html
docs/reference/mo_pub_date.html
docs/reference/mo_std_table.html
docs/reference/monthly_ccg_data_raw.html
docs/reference/mrsa_source_bacteraemia.html
docs/reference/ordered_fin_qtr.html
docs/reference/ordered_m_y.html
docs/reference/organism_labeller.html
docs/reference/patloc_for_pir_assignment.html
docs/reference/pir_org_type.html
docs/reference/popn_boilerplate.html
docs/reference/provis_orgname.html
docs/reference/qec_age_table.html
docs/reference/query_dcs.html
docs/reference/show_hcaidcs_package_manual.html
docs/reference/subregions_sp_df.html
docs/reference/time_period2fyear.html
docs/reference/time_to_onset.html
docs/reference/up_or_down.html
docs/reference/update_independent.html
hcaidcs.Rproj
man/aec_age_sex_plot.Rd man/aec_age_trend_pc.Rd man/aec_age_trend_rate.Rd man/aec_age_trend_rate_bar.Rd man/aec_age_trend_rate_pc_change.Rd man/aec_create_folder_structure.Rd man/aec_ec_source_plot.Rd man/aec_inpatient.Rd man/aec_subregion_plot.Rd man/aec_tto_plot.Rd man/age_trends_data.Rd man/ann_tab_ccg_names.Rd man/ann_tab_onset_annual.Rd man/ann_tab_onset_qtrly.Rd man/ann_tab_pir_org_type.Rd man/ann_tab_pir_quarterly.Rd man/apportion.Rd man/apportion_prior_healthcare.Rd man/area_team_names.Rd man/assignment_algorithm.Rd man/assignment_data.Rd man/assignment_data2.Rd man/at_sp_df.Rd man/cal_q_long.Rd man/cdi_prior_hc_data.Rd man/change.Rd man/check_date_class.Rd man/cmonth_to_fmonth.Rd man/cmonth_to_string.Rd man/cyear_to_cq.Rd man/cyear_to_fyear.Rd man/data_compare.Rd man/date_end_period.Rd man/date_start_period.Rd man/date_to_fmonth.Rd man/date_to_fq.Rd man/date_to_fyear.Rd man/days_in_cy.Rd man/days_in_fmonth.Rd man/days_in_fq.Rd man/days_in_fy.Rd man/dcs_popn_boilerplate.Rd man/detach_hcaidcs.Rd man/first_wednesday.Rd man/fmonth_to_string.Rd man/fq5.Rd man/fq_long.Rd man/fq_short.Rd man/fq_short_to_date.Rd man/fq_to_cq.Rd man/fq_to_fyear.Rd man/fy_long.Rd man/fy_long_short.Rd man/fy_short.Rd man/fy_six.Rd man/fy_six_to_long.Rd man/fyear_to_cyear.Rd man/fyear_to_fq.Rd man/fyq_to_fq.Rd man/group_source_bacteraemia.Rd man/group_tto_bacteraemia.Rd man/group_tto_cdi.Rd man/is_sch.Rd man/is_third_party.Rd man/kh03_boilerplate.Rd man/kh03_year.Rd man/klebsiella_sp_group.Rd man/mandatory_age.Rd man/mandatory_age_group.Rd man/mandatory_age_group_bacteraemia.Rd man/mandatory_age_group_cdi.Rd man/mf_fig1_fun.Rd man/mf_trend_data.Rd man/mo_curr_months.Rd man/mo_gnabsi_table.Rd man/mo_next_pub_date.Rd man/mo_prior_hc_table.Rd man/mo_pub_date.Rd man/mo_std_table.Rd man/monthly_ccg_data_raw.Rd man/mrsa_source_bacteraemia.Rd man/ordered_fin_qtr.Rd man/ordered_m_y.Rd man/patloc_for_pir_assignment.Rd man/pir_org_type.Rd man/popn_boilerplate.Rd man/provis_orgname.Rd man/qec_age_table.Rd man/show_hcaidcs_package_manual.Rd man/subregions_sp_df.Rd man/time_period2fyear.Rd man/time_to_onset.Rd man/up_or_down.Rd man/update_independent.Rd tests/testthat.R tests/testthat/test-aec_ec_primary_focus.R tests/testthat/test-age_groups.R tests/testthat/test-ann_tabs.R tests/testthat/test-apportion.R tests/testthat/test-assignment_algorithm.R tests/testthat/test-cmonth_to_fmonth.R tests/testthat/test-date_to_fmonth.R tests/testthat/test-date_to_fq.R tests/testthat/test-date_to_fyear.R tests/testthat/test-days_in_fmonth.R tests/testthat/test-dcs_denom_boilerplate.R tests/testthat/test-first_wednesday.R tests/testthat/test-fy_funs.R tests/testthat/test-group_source_bacteraemia.R tests/testthat/test-kh03_year.R tests/testthat/test-klebsiella_species_group.R tests/testthat/test-mf_fig1_fun.R tests/testthat/test-mo_gnabsi_table.R tests/testthat/test-mo_prior_hc_table.R tests/testthat/test-mo_std_table.R tests/testthat/test-month_to_string.R tests/testthat/test-pir_org_type.R
PublicHealthEngland/hcaidcs documentation built on July 4, 2018, 12:09 a.m.