Files in JayAchar/tbcleanr

tbcleanr: tools for cleaning TB datade

.Rbuildignore

.gitignore

.travis.yml

DESCRIPTION

NAMESPACE

NEWS.md R/adhere_classr.R R/adhere_cleanr.R R/adhere_cleanr.epiinfo.R R/adm_classr.R R/adm_data_cleanr.R R/adm_subset.R R/adm_subset.epiinfo.R R/adm_subset.koch6.R R/binary_fixer.R R/binary_fixer.epiinfo.R R/binary_fixer.koch6.R R/cavities_fixer.R R/cavities_fixer.epiinfo.R R/cavities_fixer.koch6.R R/change_cleanr.R R/change_cleanr.epiinfo.R R/change_cleanr.koch6.R R/clean_standard_indicators.R R/date_format.R R/drug_fixer.R R/drug_fixer.epiinfo.R R/drug_fixer.koch6.R R/dst_consolidator.R R/dst_consolidator.epiinfo.R R/dst_consolidator.grozny.R R/gender_fixer.R R/gender_fixer.epiinfo.R R/gender_fixer.koch6.R R/hiv_fixer.R R/hiv_fixer.epiinfo.R R/hiv_fixer.koch6.R R/id_detangle.R R/id_detangle.epiinfo.R R/lab_classr.R R/lab_data_cleanr.R R/lab_date_fixer.R R/lab_date_fixer.epiinfo.R R/lab_date_fixer.grozny.R R/lab_date_fixer.koch6.R R/lab_import_checkr.R R/lab_import_checkr.epiinfo.R R/lab_import_checkr.grozny.R R/lab_import_checkr.koch6.R R/lab_sample_fixer.R R/lab_sample_fixer.grozny.R R/lab_subset.R R/lab_subset.epiinfo.R R/lab_subset.grozny.R R/lab_subset.koch6.R R/mtbdrplus_fixer.R R/mtbdrplus_fixer.epiinfo.R R/mtbdrplus_fixer.grozny.R R/outcome_fixer.R R/outcome_fixer.epiinfo.R R/outcome_fixer.koch6.R R/recorded_dst.R R/recorded_dst.epiinfo.R R/recorded_dst.koch6.R R/response_weight_cleanr.R R/response_weight_cleanr.epiinfo.R R/response_weight_cleanr.koch6.R R/result_consolidator.R R/result_consolidator.epiinfo.R R/result_consolidator.grozny.R R/result_consolidator.koch6.R

R/sysdata.rda

R/tbcleanr.R R/txhistory.R R/txhistory.epiinfo.R R/txhistory.koch6.R R/utils.R R/xpert_result_fixer.R R/xpert_result_fixer.epiinfo.R R/xpert_result_fixer.grozny.R R/xpert_result_fixer.koch6.R R/yn_binary_fixer.R README.Rmd README.md

_pkgdown.yml

appveyor.yml

codecov.yml

data-raw/internal_data.R data-raw/testdata-adhere_classr.R data-raw/testdata-adm_subset.R data-raw/testdata-cavities_fixer.R data-raw/testdata-change_cleanr.R data-raw/testdata-date_format.R data-raw/testdata-drug_adhere.R data-raw/testdata-hiv_fixer.R data-raw/testdata-lab_date_fixer.R data-raw/testdata-lab_subset.R data-raw/testdata-mtbdrplus_fixer.R data-raw/testdata-outcome_fixer.R data-raw/testdata-recorded_dst.R data-raw/testdata-response_wt_cleanr.R data-raw/testdata-txhistory.R data-raw/testdata-yn_binary.R

docs/_config.yml

docs/articles/admission-file-workflow.html

docs/articles/getting-started.html

docs/articles/getting-started_files/figure-html/unnamed-chunk-1-1.png

docs/articles/getting-started_files/figure-html/unnamed-chunk-1-2.png

docs/articles/index.html

docs/authors.html

docs/docsearch.css

docs/docsearch.js

docs/index.html

docs/link.svg

docs/news/index.html

docs/pkgdown.css

docs/pkgdown.js

docs/pkgdown.yml

docs/reference/adherence_classr.html

docs/reference/adm_classr.html

docs/reference/adm_data_cleanr.html

docs/reference/adm_subset.default.html

docs/reference/adm_subset.epiinfo.html

docs/reference/adm_subset.html

docs/reference/adm_subset.koch6.html

docs/reference/binary_fixer.default.html

docs/reference/binary_fixer.epiinfo.html

docs/reference/binary_fixer.html

docs/reference/binary_fixer.koch6.html

docs/reference/change_classr.html

docs/reference/change_cleanr.default.html

docs/reference/change_cleanr.epiinfo.html

docs/reference/change_cleanr.html

docs/reference/change_cleanr.koch6.html

docs/reference/date_format.html

docs/reference/drug_fixer.default.html

docs/reference/drug_fixer.epiinfo.html

docs/reference/drug_fixer.html

docs/reference/drug_fixer.koch6.html

docs/reference/dst_consolidator.default.html

docs/reference/dst_consolidator.epiinfo.html

docs/reference/dst_consolidator.grozny.html

docs/reference/dst_consolidator.html

docs/reference/gender_fixer.default.html

docs/reference/gender_fixer.epiinfo.html

docs/reference/gender_fixer.html

docs/reference/gender_fixer.koch6.html

docs/reference/hiv_fixer.default.html

docs/reference/hiv_fixer.epiinfo.html

docs/reference/hiv_fixer.html

docs/reference/hiv_fixer.koch6.html

docs/reference/id_detangle.default.html

docs/reference/id_detangle.epiinfo.html

docs/reference/id_detangle.html

docs/reference/index.html

docs/reference/lab_classr.html

docs/reference/lab_data_cleanr.html

docs/reference/lab_date_fixer.default.html

docs/reference/lab_date_fixer.epiinfo.html

docs/reference/lab_date_fixer.grozny.html

docs/reference/lab_date_fixer.html

docs/reference/lab_import_checkr.default.html

docs/reference/lab_import_checkr.epiinfo.html

docs/reference/lab_import_checkr.grozny.html

docs/reference/lab_import_checkr.html

docs/reference/lab_sample_fixer.default.html

docs/reference/lab_sample_fixer.grozny.html

docs/reference/lab_sample_fixer.html

docs/reference/lab_subset.default.html

docs/reference/lab_subset.epiinfo.html

docs/reference/lab_subset.grozny.html

docs/reference/lab_subset.html

docs/reference/lab_subset.koch6.html

docs/reference/mtbdrplus_fixer.default.html

docs/reference/mtbdrplus_fixer.epiinfo.html

docs/reference/mtbdrplus_fixer.grozny.html

docs/reference/mtbdrplus_fixer.html

docs/reference/outcome_fixer.default.html

docs/reference/outcome_fixer.epiinfo.html

docs/reference/outcome_fixer.html

docs/reference/outcome_fixer.koch6.html

docs/reference/recorded_dst.default.html

docs/reference/recorded_dst.epiinfo.html

docs/reference/recorded_dst.html

docs/reference/recorded_dst.koch6.html

docs/reference/response_weight_cleanr.default.html

docs/reference/response_weight_cleanr.epiinfo.html

docs/reference/response_weight_cleanr.html

docs/reference/response_weight_cleanr.koch6.html

docs/reference/result_consolidator.default.html

docs/reference/result_consolidator.epiinfo.html

docs/reference/result_consolidator.grozny.html

docs/reference/result_consolidator.html

docs/reference/tbcleanr.html

docs/reference/txhistory.default.html

docs/reference/txhistory.epiinfo.html

docs/reference/txhistory.html

docs/reference/txhistory.koch6.html

docs/reference/xpert_result_fixer.default.html

docs/reference/xpert_result_fixer.epiinfo.html

docs/reference/xpert_result_fixer.grozny.html

docs/reference/xpert_result_fixer.html

docs/reference/xpert_variable_detector.html

docs/reference/yn_binary_fixer.html

inst/testdata/adhere_classr_epiinfo.rds

inst/testdata/adm_subset_epi.rds

inst/testdata/adm_subset_koch6.rds

inst/testdata/binary_epi.rds

inst/testdata/binary_k6.rds

inst/testdata/cav_epi.rds

inst/testdata/cav_k6.rds

inst/testdata/cavities_fixer_epiinfo.rds

inst/testdata/cavities_fixer_koch6.rds

inst/testdata/change_cleanr_epi.rds

inst/testdata/change_cleanr_koch6.rds

inst/testdata/date_format_chr_posix.rds

inst/testdata/date_format_chr_str.rds

inst/testdata/date_format_posix.rds

inst/testdata/drug_adhere_epi.rds

inst/testdata/drug_epi.rds

inst/testdata/drug_k6.rds

inst/testdata/dst_consolidator_epiinfo.rds

inst/testdata/dst_consolidator_grozny.rds

inst/testdata/epi_adm_classr.rds

inst/testdata/gender_epi.rds

inst/testdata/gender_k6.rds

inst/testdata/hiv_epi.rds

inst/testdata/hiv_k6.rds

inst/testdata/id_detangle_epi.rds

inst/testdata/k6_adm_classr.rds

inst/testdata/lab_classr_epi.rds

inst/testdata/lab_classr_groz.rds

inst/testdata/lab_classr_k6.rds

inst/testdata/lab_date_fixer_epi.rds

inst/testdata/lab_date_fixer_groz.rds

inst/testdata/lab_date_fixer_k6.rds

inst/testdata/lab_import_epiinfo.rds

inst/testdata/lab_import_grozny.rds

inst/testdata/lab_sample_fixer_grozny.rds

inst/testdata/lab_subset_groz.rds

inst/testdata/mtbdr_epiinfo.rds

inst/testdata/mtbdr_grozny.rds

inst/testdata/outcome_epi.rds

inst/testdata/outcome_k6.rds

inst/testdata/recorded_dst_epiinfo.rds

inst/testdata/recorded_dst_koch6.rds

inst/testdata/response_wt_cleanr_epiinfo.rds

inst/testdata/result_consolidator_epiinfo.rds

inst/testdata/result_consolidator_groz.rds

inst/testdata/txhistory_epiinfo.rds

inst/testdata/txhistory_koch6.rds

inst/testdata/xpert_epiinfo.rds

inst/testdata/xpert_grozny.rds

inst/testdata/yn_binary.rds

man/adhere_classr.Rd man/adhere_cleanr.Rd man/adhere_cleanr.default.Rd man/adhere_cleanr.epiinfo.Rd man/adm_classr.Rd man/adm_data_cleanr.Rd man/adm_subset.Rd man/adm_subset.default.Rd man/adm_subset.epiinfo.Rd man/adm_subset.koch6.Rd man/binary_fixer.Rd man/binary_fixer.default.Rd man/binary_fixer.epiinfo.Rd man/binary_fixer.koch6.Rd man/cavities_fixer.Rd man/cavities_fixer.default.Rd man/cavities_fixer.epiinfo.Rd man/cavities_fixer.koch6.Rd man/change_cleanr.Rd man/change_cleanr.default.Rd man/change_cleanr.epiinfo.Rd man/change_cleanr.koch6.Rd man/clean_standard_indicators.Rd man/date_format.Rd man/drug_adhere.Rd man/drug_fixer.Rd man/drug_fixer.default.Rd man/drug_fixer.epiinfo.Rd man/drug_fixer.koch6.Rd man/dst_consolidator.Rd man/dst_consolidator.default.Rd man/dst_consolidator.epiinfo.Rd man/dst_consolidator.grozny.Rd man/extract_tb_data.Rd man/gender_fixer.Rd man/gender_fixer.default.Rd man/gender_fixer.epiinfo.Rd man/gender_fixer.koch6.Rd man/get_lookup_value.Rd man/hiv_fixer.Rd man/hiv_fixer.default.Rd man/hiv_fixer.epiinfo.Rd man/hiv_fixer.koch6.Rd man/id_detangle.Rd man/id_detangle.default.Rd man/id_detangle.epiinfo.Rd man/lab_classr.Rd man/lab_data_cleanr.Rd man/lab_date_fixer.Rd man/lab_date_fixer.default.Rd man/lab_date_fixer.epiinfo.Rd man/lab_date_fixer.grozny.Rd man/lab_date_fixer.koch6.Rd man/lab_import_checkr.Rd man/lab_import_checkr.default.Rd man/lab_import_checkr.epiinfo.Rd man/lab_import_checkr.grozny.Rd man/lab_import_checkr.koch6.Rd man/lab_sample_fixer.Rd man/lab_sample_fixer.default.Rd man/lab_sample_fixer.grozny.Rd man/lab_subset.Rd man/lab_subset.default.Rd man/lab_subset.epiinfo.Rd man/lab_subset.grozny.Rd man/lab_subset.koch6.Rd man/mtbdrplus_fixer.Rd man/mtbdrplus_fixer.default.Rd man/mtbdrplus_fixer.epiinfo.Rd man/mtbdrplus_fixer.grozny.Rd man/outcome_fixer.Rd man/outcome_fixer.default.Rd man/outcome_fixer.epiinfo.Rd man/outcome_fixer.koch6.Rd man/recorded_dst.Rd man/recorded_dst.default.Rd man/recorded_dst.epiinfo.Rd man/recorded_dst.koch6.Rd man/response_weight_cleanr.Rd man/response_weight_cleanr.default.Rd man/response_weight_cleanr.epiinfo.Rd man/response_weight_cleanr.koch6.Rd man/result_consolidator.Rd man/result_consolidator.default.Rd man/result_consolidator.epiinfo.Rd man/result_consolidator.grozny.Rd man/result_consolidator.koch6.Rd man/tbcleanr.Rd man/transpose_tb_data.Rd man/txhistory.Rd man/txhistory.default.Rd man/txhistory.epiinfo.Rd man/txhistory.koch6.Rd man/xpert_result_fixer.Rd man/xpert_result_fixer.default.Rd man/xpert_result_fixer.epiinfo.Rd man/xpert_result_fixer.grozny.Rd man/xpert_result_fixer.koch6.Rd man/xpert_variable_detector.Rd man/yn_binary_fixer.Rd

tbcleanr.Rproj

tests/testthat.R tests/testthat/test-adhere_classr.R tests/testthat/test-adm_classr.R tests/testthat/test-adm_subset.R tests/testthat/test-binary_fixer.R tests/testthat/test-cavities_fixer.R tests/testthat/test-change_cleanr.R tests/testthat/test-date_format.R tests/testthat/test-drug_adhere.R tests/testthat/test-drug_fixer.R tests/testthat/test-dst_consolidator.R tests/testthat/test-gender_fixer.R tests/testthat/test-get_lookup_value.R tests/testthat/test-hiv_fixer.R tests/testthat/test-id_detangle.R tests/testthat/test-lab_classr.R tests/testthat/test-lab_date_fixer.R tests/testthat/test-lab_import_checkr.R tests/testthat/test-lab_sample_fixer.R tests/testthat/test-lab_subset.R tests/testthat/test-lookup-tables.R tests/testthat/test-mtbdrplus_fixer.R tests/testthat/test-outcome_fixer.R tests/testthat/test-recorded_dst.R tests/testthat/test-response_weight_cleanr.R tests/testthat/test-result_consolidator.R tests/testthat/test-txhistory.R tests/testthat/test-xpert_result_fixer.R tests/testthat/test-yn_binary.R

vignettes/.gitignore

vignettes/admission-file-workflow.Rmd vignettes/getting-started.Rmd vignettes/standard-indicators-workflow.Rmd

JayAchar/tbcleanr documentation built on Aug. 12, 2020, 8:40 a.m.