Files in MoTrPAC/MotrpacBicQC
QC/QA functions for the MoTrPAC community
.Rbuildignore
.circleci/config.yml
.github/.gitignore
.github/workflows/pkgdown.yaml
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md
R/data.R
R/metabolomics_data_dictionary.R
R/metabolomics_plots.R
R/metabolomics_qc.R
R/misc.R
R/olink_qc.R
R/plots_olink.R
R/proteomics_plots.R
R/proteomics_qc.R
R/validations.R
README.md
data/assay_abbr.rda
data/assay_codes.rda
data/assay_order.rda
data/bic_animal_tissue_code.rda
data/group_abbr.rda
data/group_cols.rda
data/metabolomics_data_dictionary.rda
data/metadata_metabolites_named.rda
data/metadata_metabolites_unnamed.rda
data/metadata_sample_named.rda
data/metadata_sample_unnamed.rda
data/phenotypes_pass1a06_short.rda
data/results_named.rda
data/results_unnamed.rda
data/sex_abbr.rda
data/sex_cols.rda
data/tissue_abbr.rda
data/tissue_cols.rda
data/tissue_order.rda
docs/404.html
docs/LICENSE-text.html
docs/articles/BIC_Metabolomics_DataProcessing_Summary_20200303.png
docs/articles/index.html
docs/articles/metabolomics_qc.html
docs/articles/other_functions.html
docs/articles/other_functions_files/accessible-code-block-0.0.1/empty-anchor.js
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docs/reference/create_folder.html
docs/reference/dl_read_gcp.html
docs/reference/filter_required_columns.html
docs/reference/generate_phase_details.html
docs/reference/get_and_validate_mdd.html
docs/reference/get_full_path2batch.html
docs/reference/group_abbr.html
docs/reference/group_cols.html
docs/reference/index.html
docs/reference/load_metabolomics_batch.html
docs/reference/load_olink_batch.html
docs/reference/load_proteomics.html
docs/reference/merge_all_metabolomics.html
docs/reference/merge_metabolomics_metadata.html
docs/reference/merge_phenotype_metabolomics.html
docs/reference/metabolomics_data_dictionary.html
docs/reference/metadata_metabolites_named.html
docs/reference/metadata_metabolites_unnamed.html
docs/reference/metadata_sample_named.html
docs/reference/metadata_sample_unnamed.html
docs/reference/open_file.html
docs/reference/phenotypes_pass1a06_short.html
docs/reference/plot_basic_metabolomics_qc.html
docs/reference/plot_basic_olink_qc.html
docs/reference/proteomics_plots_rii.html
docs/reference/remove_empty_columns.html
docs/reference/remove_empty_rows.html
docs/reference/results_named.html
docs/reference/results_unnamed.html
docs/reference/set_phase.html
docs/reference/sex_abbr.html
docs/reference/sex_cols.html
docs/reference/tissue_abbr.html
docs/reference/tissue_cols.html
docs/reference/tissue_order.html
docs/reference/validate_assay.html
docs/reference/validate_batch.html
docs/reference/validate_cas.html
docs/reference/validate_dates_times.html
docs/reference/validate_lc_column_id.html
docs/reference/validate_metabolomics.html
docs/reference/validate_na_empty.html
docs/reference/validate_olink.html
docs/reference/validate_phase.html
docs/reference/validate_processFolder.html
docs/reference/validate_proteomics.html
docs/reference/validate_refmetname.html
docs/reference/validate_tissue.html
docs/reference/validate_two_phases.html
docs/reference/validate_uniprot_ids_with_uniprot.html
docs/reference/validate_yyyymmdd_dates.html
docs/reference/write_metabolomics_releases.html
docs/reference/write_olink_releases.html
docs/reference/write_proteomics_releases.html
docs/sitemap.xml
inst/extdata/assay_codes.tsv
inst/extdata/bic_animal_tissue_code.tsv
inst/extdata/generateRdata.R
inst/extdata/motrpac-metabolomics-named-revised-20210222.csv
inst/extdata/motrpac-metabolomics-named-revised-20210325.csv
inst/extdata/motrpac-metabolomics-named-revised-20210429.csv
inst/extdata/motrpac-metabolomics-named-revised-20210505.csv
inst/extdata/motrpac_colors_abbr.R
inst/extdata/tissue_codes.R
man/assay_abbr.Rd
man/assay_codes.Rd
man/assay_order.Rd
man/bic_animal_tissue_code.Rd
man/check_crossfile_olink_validation.Rd
man/check_failedsamples.Rd
man/check_manifest_rawdata.Rd
man/check_metadata_metabolites.Rd
man/check_metadata_phase_file.Rd
man/check_metadata_proteins.Rd
man/check_metadata_samples.Rd
man/check_metadata_samples_olink.Rd
man/check_missing_values.Rd
man/check_ratio_proteomics.Rd
man/check_results.Rd
man/check_results_olink.Rd
man/check_rii_proteomics.Rd
man/check_vial_metadata_proteomics.Rd
man/check_viallabel_dmaqc.Rd
man/combine_metabolomics_batch.Rd
man/create_folder.Rd
man/dl_read_gcp.Rd
man/filter_required_columns.Rd
man/generate_phase_details.Rd
man/get_and_validate_mdd.Rd
man/get_full_path2batch.Rd
man/group_abbr.Rd
man/group_cols.Rd
man/load_metabolomics_batch.Rd
man/load_olink_batch.Rd
man/load_proteomics.Rd
man/merge_all_metabolomics.Rd
man/merge_metabolomics_metadata.Rd
man/merge_phenotype_metabolomics.Rd
man/metabolomics_data_dictionary.Rd
man/metadata_metabolites_named.Rd
man/metadata_metabolites_unnamed.Rd
man/metadata_sample_named.Rd
man/metadata_sample_unnamed.Rd
man/open_file.Rd
man/phenotypes_pass1a06_short.Rd
man/plot_basic_metabolomics_qc.Rd
man/plot_basic_olink_qc.Rd
man/proteomics_plots_rii.Rd
man/remove_empty_columns.Rd
man/remove_empty_rows.Rd
man/results_named.Rd
man/results_unnamed.Rd
man/set_phase.Rd
man/sex_abbr.Rd
man/sex_cols.Rd
man/tissue_abbr.Rd
man/tissue_cols.Rd
man/tissue_order.Rd
man/validate_assay.Rd
man/validate_batch.Rd
man/validate_cas.Rd
man/validate_dates_times.Rd
man/validate_lc_column_id.Rd
man/validate_metabolomics.Rd
man/validate_na_empty.Rd
man/validate_olink.Rd
man/validate_phase.Rd
man/validate_processFolder.Rd
man/validate_proteomics.Rd
man/validate_refmetname.Rd
man/validate_tissue.Rd
man/validate_two_phases.Rd
man/validate_uniprot_ids_with_uniprot.Rd
man/validate_yyyymmdd_dates.Rd
man/write_metabolomics_releases.Rd
man/write_olink_releases.Rd
man/write_proteomics_releases.Rd
notes_developers.md
tests/testthat.R
tests/testthat/test-metabolomics_data_dictionary.R
tests/testthat/test-metabolomics_qc.R
tests/testthat/test-misc.R
tests/testthat/test-olink.R
tests/testthat/test-proteomics_qc.R
tests/testthat/test-refmet.R
tests/testthat/test-validations.R
vignettes/BIC_Metabolomics_DataProcessing_Summary_20200303.png
vignettes/other_functions.Rmd
vignettes/other_functions.html
vignettes/other_functions.md
vignettes/qc_metabolomics.R
vignettes/qc_metabolomics.Rmd
vignettes/qc_metabolomics.html
vignettes/qc_metabolomics.md
vignettes/qc_olink.R
vignettes/qc_olink.Rmd
vignettes/qc_olink.html
vignettes/qc_olink.md
vignettes/qc_proteomics.R
vignettes/qc_proteomics.Rmd
vignettes/qc_proteomics.html
vignettes/qc_proteomics.md
