diff --git a/DESCRIPTION b/DESCRIPTION index 52372c1..8be1d69 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,8 +1,8 @@ Package: MotrpacBicQC Type: Package Title: QC/QA functions for the MoTrPAC community -Version: 0.9.4 -Date: 2024-05-16 +Version: 0.9.5 +Date: 2024-05-22 Author: MoTrPAC Bioinformatics Center Maintainer: David Jimenez-Morales Description: R Package for the analysis of MoTrPAC datasets. diff --git a/NEWS.md b/NEWS.md index b3fdbcb..2974695 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,3 +1,7 @@ +# MotrpacBicQC 0.9.5 (2024-05-22) + +* Proteomics: provide QC support for TMT-18 + # MotrpacBicQC 0.9.4 (2024-05-16) * Enhance and improve `dl_read_gcp`: diff --git a/R/misc.R b/R/misc.R index afea585..aa2a584 100644 --- a/R/misc.R +++ b/R/misc.R @@ -343,6 +343,10 @@ filter_required_columns <- function(df, emeta_sample_coln <- append(emeta_sample_coln, "tmt16_channel") if(verbose) message(" + (+) All required columns present (tmt16 experiment)") df <- subset(df, select = emeta_sample_coln) + }else if("tmt18_channel" %in% colnames(df)){ + emeta_sample_coln <- append(emeta_sample_coln, "tmt18_channel") + if(verbose) message(" + (+) All required columns present (tmt18 experiment)") + df <- subset(df, select = emeta_sample_coln) }else{ if(verbose) message(" - (-) Expected COLUMN NAMES are missed: FAIL") } diff --git a/R/proteomics_qc.R b/R/proteomics_qc.R index 8b0ba60..e032758 100644 --- a/R/proteomics_qc.R +++ b/R/proteomics_qc.R @@ -523,8 +523,11 @@ check_vial_metadata_proteomics <- function(df_vm, }else if("tmt16_channel" %in% colnames(df_vm)){ required_columns <- c("vial_label", "tmt_plex", "tmt16_channel") tmt_channel <- "tmt16_channel" + }else if("tmt18_channel" %in% colnames(df_vm)){ + required_columns <- c("vial_label", "tmt_plex", "tmt18_channel") + tmt_channel <- "tmt18_channel" }else{ - if(verbose) message(" - (-) `tmt[11|16]_channel` column not found") + if(verbose) message(" - (-) `tmt[11|16|18]_channel` column not found") ic_vm <- 3 return(ic_vm) } @@ -542,6 +545,9 @@ check_vial_metadata_proteomics <- function(df_vm, }else if("tmt16_channel" %in% colnames(df_vm)){ df_vm$vial_label <- gsub(" ", "", df_vm$vial_label) valid_channels <- c("126C", "127N", "127C", "128N", "128C", "129N", "129C", "130N", "130C", "131N", "131C", "132N", "132C", "133N", "133C", "134N") + }else if("tmt18_channel" %in% colnames(df_vm)){ + df_vm$vial_label <- gsub(" ", "", df_vm$vial_label) + valid_channels <- c("126C", "127N", "127C", "128N", "128C", "129N", "129C", "130N", "130C", "131N", "131C", "132N", "132C", "133N", "133C", "134N") } ic_vm <- 0 @@ -550,7 +556,7 @@ check_vial_metadata_proteomics <- function(df_vm, for(p in plexes){ temp_plex <- df_vm[which(df_vm$tmt_plex == p),] - if(all(valid_channels %in% temp_plex[[tmt_channel]])){ + if( all(valid_channels %in% temp_plex[[tmt_channel]]) ){ if(verbose) message(" + (+) All ", tmt_channel," channels are valid in plex ", paste(p)) }else{ if(tmt_channel == "tmt11_channel"){ @@ -566,15 +572,22 @@ check_vial_metadata_proteomics <- function(df_vm, } } } - - all_samples <- df_vm$vial_label - all_vial_labels <- NA - - if( any( grepl("Ref", df_vm$vial_label) ) ){ - all_vial_labels <- all_samples[!grepl('^Ref', all_samples)] - }else{ - if(verbose) message(" - (-) Ref channels not found in vial_metadata") - ic_vm <- ic_vm + 1 + + # Check that all plexes have one channel + for(p in plexes){ + temp_plex <- df_vm[which(df_vm$tmt_plex == p),] + if( sum(grepl("Ref", temp_plex$vial_label)) == 1 ){ + if(verbose) message(" + (+) Ref channel found in plex ", paste(p)) + }else if(sum(grepl("Ref", temp_plex$vial_label)) == 0) { + if(verbose) message(" - (-) Ref channel missed in plex ", paste(p)) + ic_vm <- ic_vm + 1 + }else if(sum(grepl("Ref", temp_plex$vial_label)) > 1) { + if(verbose) message(" - (-) Too many reference channels in plex ", paste(p)) + if(verbose){ + print(temp_plex[grepl("Ref", temp_plex$vial_label), ]) + } + ic_vm <- ic_vm + 1 + } } if( any(duplicated(df_vm$vial_label)) ){ diff --git a/docs/404.html b/docs/404.html index 5722362..4b76037 100644 --- a/docs/404.html +++ b/docs/404.html @@ -32,7 +32,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/LICENSE-text.html b/docs/LICENSE-text.html index 6098eb2..6157ec7 100644 --- a/docs/LICENSE-text.html +++ b/docs/LICENSE-text.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/articles/index.html b/docs/articles/index.html index 27e56bc..8599997 100644 --- a/docs/articles/index.html +++ b/docs/articles/index.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/articles/other_functions.html b/docs/articles/other_functions.html index e44a6f0..816f6b8 100644 --- a/docs/articles/other_functions.html +++ b/docs/articles/other_functions.html @@ -4,7 +4,7 @@ - + MotrpacBicQC: Other Functions @@ -123,7 +123,7 @@

MotrpacBicQC: Other Functions

-

2024-05-16

+

2024-05-22

diff --git a/docs/articles/qc_metabolomics.html b/docs/articles/qc_metabolomics.html index 09e7268..4386534 100644 --- a/docs/articles/qc_metabolomics.html +++ b/docs/articles/qc_metabolomics.html @@ -4,7 +4,7 @@ - + MotrpacBicQC: Metabolomics QC @@ -126,7 +126,7 @@

MotrpacBicQC: Metabolomics QC

-

2024-05-16

+

2024-05-22

diff --git a/docs/articles/qc_olink.html b/docs/articles/qc_olink.html index 6dc0807..262859a 100644 --- a/docs/articles/qc_olink.html +++ b/docs/articles/qc_olink.html @@ -4,7 +4,7 @@ - + MotrpacBicQC: OLINK QC @@ -125,7 +125,7 @@

MotrpacBicQC: OLINK QC

-

2024-05-16

+

2024-05-22

diff --git a/docs/articles/qc_proteomics.html b/docs/articles/qc_proteomics.html index fa75714..ff54baf 100644 --- a/docs/articles/qc_proteomics.html +++ b/docs/articles/qc_proteomics.html @@ -4,7 +4,7 @@ - + MotrpacBicQC: Proteomics QC @@ -125,7 +125,7 @@

MotrpacBicQC: Proteomics QC

-

2024-05-16

+

2024-05-22

diff --git a/docs/authors.html b/docs/authors.html index cd004d7..dc25986 100644 --- a/docs/authors.html +++ b/docs/authors.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 @@ -82,13 +82,13 @@

Citation

Center MB (2024). MotrpacBicQC: QC/QA functions for the MoTrPAC community. -R package version 0.9.4, https://github.com/MoTrPAC/MotrpacBicQC. +R package version 0.9.5, https://github.com/MoTrPAC/MotrpacBicQC. 

@Manual{,
   title = {MotrpacBicQC: QC/QA functions for the MoTrPAC community},
   author = {MoTrPAC Bioinformatics Center},
   year = {2024},
-  note = {R package version 0.9.4},
+  note = {R package version 0.9.5},
   url = {https://github.com/MoTrPAC/MotrpacBicQC},
 }
diff --git a/docs/index.html b/docs/index.html index 89103e7..5e355bf 100644 --- a/docs/index.html +++ b/docs/index.html @@ -41,7 +41,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/news/index.html b/docs/news/index.html index 92482b4..28b8f5d 100644 --- a/docs/news/index.html +++ b/docs/news/index.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 @@ -66,6 +66,10 @@

Changelog

Source: NEWS.md +
+

MotrpacBicQC 0.9.5 (2024-05-22)

+

MotrpacBicQC 0.9.4 (2024-05-16)

diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml index 09f4d3c..e3dcf40 100644 --- a/docs/pkgdown.yml +++ b/docs/pkgdown.yml @@ -6,5 +6,5 @@ articles: qc_metabolomics: qc_metabolomics.html qc_olink: qc_olink.html qc_proteomics: qc_proteomics.html -last_built: 2024-05-16T19:23Z +last_built: 2024-05-23T04:49Z diff --git a/docs/reference/assay_abbr.html b/docs/reference/assay_abbr.html index 35f4409..0314c6c 100644 --- a/docs/reference/assay_abbr.html +++ b/docs/reference/assay_abbr.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/assay_codes.html b/docs/reference/assay_codes.html index af8a63a..c23da89 100644 --- a/docs/reference/assay_codes.html +++ b/docs/reference/assay_codes.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/assay_order.html b/docs/reference/assay_order.html index 6d9371a..dd0dcf5 100644 --- a/docs/reference/assay_order.html +++ b/docs/reference/assay_order.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/bic_animal_tissue_code.html b/docs/reference/bic_animal_tissue_code.html index 7edcbd3..d8009b9 100644 --- a/docs/reference/bic_animal_tissue_code.html +++ b/docs/reference/bic_animal_tissue_code.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_crossfile_olink_validation.html b/docs/reference/check_crossfile_olink_validation.html index 83cc055..024313c 100644 --- a/docs/reference/check_crossfile_olink_validation.html +++ b/docs/reference/check_crossfile_olink_validation.html @@ -18,7 +18,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_failedsamples.html b/docs/reference/check_failedsamples.html index a0d2f51..37011d4 100644 --- a/docs/reference/check_failedsamples.html +++ b/docs/reference/check_failedsamples.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_manifest_rawdata.html b/docs/reference/check_manifest_rawdata.html index b1dc275..d347b07 100644 --- a/docs/reference/check_manifest_rawdata.html +++ b/docs/reference/check_manifest_rawdata.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_metadata_metabolites.html b/docs/reference/check_metadata_metabolites.html index d06cd10..0023eea 100644 --- a/docs/reference/check_metadata_metabolites.html +++ b/docs/reference/check_metadata_metabolites.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_metadata_phase_file.html b/docs/reference/check_metadata_phase_file.html index 0dfd706..e6819b7 100644 --- a/docs/reference/check_metadata_phase_file.html +++ b/docs/reference/check_metadata_phase_file.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_metadata_proteins.html b/docs/reference/check_metadata_proteins.html index 3df82f2..e04a8ce 100644 --- a/docs/reference/check_metadata_proteins.html +++ b/docs/reference/check_metadata_proteins.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_metadata_samples.html b/docs/reference/check_metadata_samples.html index 570a698..cb8a153 100644 --- a/docs/reference/check_metadata_samples.html +++ b/docs/reference/check_metadata_samples.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_metadata_samples_olink.html b/docs/reference/check_metadata_samples_olink.html index 80a1a8a..79e81f3 100644 --- a/docs/reference/check_metadata_samples_olink.html +++ b/docs/reference/check_metadata_samples_olink.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_missing_values.html b/docs/reference/check_missing_values.html index 69334c5..dd86ae0 100644 --- a/docs/reference/check_missing_values.html +++ b/docs/reference/check_missing_values.html @@ -18,7 +18,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_ratio_proteomics.html b/docs/reference/check_ratio_proteomics.html index 8d0aed1..80358a4 100644 --- a/docs/reference/check_ratio_proteomics.html +++ b/docs/reference/check_ratio_proteomics.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_results.html b/docs/reference/check_results.html index d2ce813..6d9d913 100644 --- a/docs/reference/check_results.html +++ b/docs/reference/check_results.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_results_olink.html b/docs/reference/check_results_olink.html index af61d2b..2cd48df 100644 --- a/docs/reference/check_results_olink.html +++ b/docs/reference/check_results_olink.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_rii_proteomics.html b/docs/reference/check_rii_proteomics.html index e31f101..233e6a1 100644 --- a/docs/reference/check_rii_proteomics.html +++ b/docs/reference/check_rii_proteomics.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_vial_metadata_proteomics.html b/docs/reference/check_vial_metadata_proteomics.html index 95ee294..d161427 100644 --- a/docs/reference/check_vial_metadata_proteomics.html +++ b/docs/reference/check_vial_metadata_proteomics.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/check_viallabel_dmaqc.html b/docs/reference/check_viallabel_dmaqc.html index b46336c..c5a72f7 100644 --- a/docs/reference/check_viallabel_dmaqc.html +++ b/docs/reference/check_viallabel_dmaqc.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/combine_metabolomics_batch.html b/docs/reference/combine_metabolomics_batch.html index d5aec76..1126990 100644 --- a/docs/reference/combine_metabolomics_batch.html +++ b/docs/reference/combine_metabolomics_batch.html @@ -19,7 +19,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/create_folder.html b/docs/reference/create_folder.html index ac73a11..7ba1661 100644 --- a/docs/reference/create_folder.html +++ b/docs/reference/create_folder.html @@ -18,7 +18,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/dl_read_gcp.html b/docs/reference/dl_read_gcp.html index c583079..7d3681d 100644 --- a/docs/reference/dl_read_gcp.html +++ b/docs/reference/dl_read_gcp.html @@ -19,7 +19,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/filter_required_columns.html b/docs/reference/filter_required_columns.html index 0b2a5d6..c0c0d14 100644 --- a/docs/reference/filter_required_columns.html +++ b/docs/reference/filter_required_columns.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/generate_phase_details.html b/docs/reference/generate_phase_details.html index 40ffbe7..d86f9b5 100644 --- a/docs/reference/generate_phase_details.html +++ b/docs/reference/generate_phase_details.html @@ -21,7 +21,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/get_and_validate_mdd.html b/docs/reference/get_and_validate_mdd.html index 2e1507e..daf0a07 100644 --- a/docs/reference/get_and_validate_mdd.html +++ b/docs/reference/get_and_validate_mdd.html @@ -18,7 +18,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/get_full_path2batch.html b/docs/reference/get_full_path2batch.html index 807f7be..e3862db 100644 --- a/docs/reference/get_full_path2batch.html +++ b/docs/reference/get_full_path2batch.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/group_abbr.html b/docs/reference/group_abbr.html index 30858e1..6ae1db6 100644 --- a/docs/reference/group_abbr.html +++ b/docs/reference/group_abbr.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/group_cols.html b/docs/reference/group_cols.html index 9f4db5a..e443654 100644 --- a/docs/reference/group_cols.html +++ b/docs/reference/group_cols.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/index.html b/docs/reference/index.html index 8ceba3c..80d8a0c 100644 --- a/docs/reference/index.html +++ b/docs/reference/index.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/load_metabolomics_batch.html b/docs/reference/load_metabolomics_batch.html index 1ed1da1..db1dd90 100644 --- a/docs/reference/load_metabolomics_batch.html +++ b/docs/reference/load_metabolomics_batch.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/load_olink_batch.html b/docs/reference/load_olink_batch.html index 79cab6d..15bfdd6 100644 --- a/docs/reference/load_olink_batch.html +++ b/docs/reference/load_olink_batch.html @@ -21,7 +21,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/load_proteomics.html b/docs/reference/load_proteomics.html index 9e67236..3e16cdd 100644 --- a/docs/reference/load_proteomics.html +++ b/docs/reference/load_proteomics.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/merge_all_metabolomics.html b/docs/reference/merge_all_metabolomics.html index 7185173..c84fe85 100644 --- a/docs/reference/merge_all_metabolomics.html +++ b/docs/reference/merge_all_metabolomics.html @@ -18,7 +18,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/merge_metabolomics_metadata.html b/docs/reference/merge_metabolomics_metadata.html index 71a2b1e..6a001c5 100644 --- a/docs/reference/merge_metabolomics_metadata.html +++ b/docs/reference/merge_metabolomics_metadata.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/merge_phenotype_metabolomics.html b/docs/reference/merge_phenotype_metabolomics.html index 50c965d..1a8a57b 100644 --- a/docs/reference/merge_phenotype_metabolomics.html +++ b/docs/reference/merge_phenotype_metabolomics.html @@ -18,7 +18,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/metabolomics_data_dictionary.html b/docs/reference/metabolomics_data_dictionary.html index 2583e2f..c2852ad 100644 --- a/docs/reference/metabolomics_data_dictionary.html +++ b/docs/reference/metabolomics_data_dictionary.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/metadata_metabolites_named.html b/docs/reference/metadata_metabolites_named.html index 392b5ba..8a1af7d 100644 --- a/docs/reference/metadata_metabolites_named.html +++ b/docs/reference/metadata_metabolites_named.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/metadata_metabolites_unnamed.html b/docs/reference/metadata_metabolites_unnamed.html index 16fdfcc..a9fbc27 100644 --- a/docs/reference/metadata_metabolites_unnamed.html +++ b/docs/reference/metadata_metabolites_unnamed.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/metadata_sample_named.html b/docs/reference/metadata_sample_named.html index 620d346..bf18416 100644 --- a/docs/reference/metadata_sample_named.html +++ b/docs/reference/metadata_sample_named.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/metadata_sample_unnamed.html b/docs/reference/metadata_sample_unnamed.html index d35faac..e8300d1 100644 --- a/docs/reference/metadata_sample_unnamed.html +++ b/docs/reference/metadata_sample_unnamed.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/open_file.html b/docs/reference/open_file.html index bd2fccb..ad32dde 100644 --- a/docs/reference/open_file.html +++ b/docs/reference/open_file.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/phenotypes_pass1a06_short.html b/docs/reference/phenotypes_pass1a06_short.html index d59eeb4..5d4eb56 100644 --- a/docs/reference/phenotypes_pass1a06_short.html +++ b/docs/reference/phenotypes_pass1a06_short.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/plot_basic_metabolomics_qc.html b/docs/reference/plot_basic_metabolomics_qc.html index 9df57ee..c667770 100644 --- a/docs/reference/plot_basic_metabolomics_qc.html +++ b/docs/reference/plot_basic_metabolomics_qc.html @@ -18,7 +18,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/plot_basic_olink_qc.html b/docs/reference/plot_basic_olink_qc.html index aafaf8f..1f2e74d 100644 --- a/docs/reference/plot_basic_olink_qc.html +++ b/docs/reference/plot_basic_olink_qc.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/proteomics_plots_rii.html b/docs/reference/proteomics_plots_rii.html index 66669da..5622e36 100644 --- a/docs/reference/proteomics_plots_rii.html +++ b/docs/reference/proteomics_plots_rii.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/remove_empty_columns.html b/docs/reference/remove_empty_columns.html index c3f87a1..2e5e8d5 100644 --- a/docs/reference/remove_empty_columns.html +++ b/docs/reference/remove_empty_columns.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/remove_empty_rows.html b/docs/reference/remove_empty_rows.html index 2fb05b7..774529d 100644 --- a/docs/reference/remove_empty_rows.html +++ b/docs/reference/remove_empty_rows.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/results_named.html b/docs/reference/results_named.html index 84c8dbc..d8c7608 100644 --- a/docs/reference/results_named.html +++ b/docs/reference/results_named.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/results_unnamed.html b/docs/reference/results_unnamed.html index c530b46..073a1fd 100644 --- a/docs/reference/results_unnamed.html +++ b/docs/reference/results_unnamed.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/set_phase.html b/docs/reference/set_phase.html index 88b31a4..14511f2 100644 --- a/docs/reference/set_phase.html +++ b/docs/reference/set_phase.html @@ -27,7 +27,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/sex_abbr.html b/docs/reference/sex_abbr.html index 8a73df9..a7aadc1 100644 --- a/docs/reference/sex_abbr.html +++ b/docs/reference/sex_abbr.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/sex_cols.html b/docs/reference/sex_cols.html index ac2dc68..5361cc0 100644 --- a/docs/reference/sex_cols.html +++ b/docs/reference/sex_cols.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/tissue_abbr.html b/docs/reference/tissue_abbr.html index 29da6e7..0da2ed6 100644 --- a/docs/reference/tissue_abbr.html +++ b/docs/reference/tissue_abbr.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/tissue_cols.html b/docs/reference/tissue_cols.html index 96b406f..a929918 100644 --- a/docs/reference/tissue_cols.html +++ b/docs/reference/tissue_cols.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/tissue_order.html b/docs/reference/tissue_order.html index c7a998c..caa268a 100644 --- a/docs/reference/tissue_order.html +++ b/docs/reference/tissue_order.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_assay.html b/docs/reference/validate_assay.html index df7fa31..e4e0dce 100644 --- a/docs/reference/validate_assay.html +++ b/docs/reference/validate_assay.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_batch.html b/docs/reference/validate_batch.html index 70c310b..02147ce 100644 --- a/docs/reference/validate_batch.html +++ b/docs/reference/validate_batch.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_cas.html b/docs/reference/validate_cas.html index cdd219b..d35e4fa 100644 --- a/docs/reference/validate_cas.html +++ b/docs/reference/validate_cas.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_dates_times.html b/docs/reference/validate_dates_times.html index 17b00c4..645a635 100644 --- a/docs/reference/validate_dates_times.html +++ b/docs/reference/validate_dates_times.html @@ -19,7 +19,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_lc_column_id.html b/docs/reference/validate_lc_column_id.html index 24af2c8..dab1c38 100644 --- a/docs/reference/validate_lc_column_id.html +++ b/docs/reference/validate_lc_column_id.html @@ -19,7 +19,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_metabolomics.html b/docs/reference/validate_metabolomics.html index 0c4343d..e3f0b6f 100644 --- a/docs/reference/validate_metabolomics.html +++ b/docs/reference/validate_metabolomics.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_na_empty.html b/docs/reference/validate_na_empty.html index 6411dc3..e1b8c71 100644 --- a/docs/reference/validate_na_empty.html +++ b/docs/reference/validate_na_empty.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_olink.html b/docs/reference/validate_olink.html index 3341171..ced151d 100644 --- a/docs/reference/validate_olink.html +++ b/docs/reference/validate_olink.html @@ -20,7 +20,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_phase.html b/docs/reference/validate_phase.html index 998ee59..d28e9bc 100644 --- a/docs/reference/validate_phase.html +++ b/docs/reference/validate_phase.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_processFolder.html b/docs/reference/validate_processFolder.html index 1b89e40..4bafe73 100644 --- a/docs/reference/validate_processFolder.html +++ b/docs/reference/validate_processFolder.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_proteomics.html b/docs/reference/validate_proteomics.html index 0ff10c3..03b688f 100644 --- a/docs/reference/validate_proteomics.html +++ b/docs/reference/validate_proteomics.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_refmetname.html b/docs/reference/validate_refmetname.html index d5e3b29..9f8b9cb 100644 --- a/docs/reference/validate_refmetname.html +++ b/docs/reference/validate_refmetname.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_tissue.html b/docs/reference/validate_tissue.html index 616c813..a817f77 100644 --- a/docs/reference/validate_tissue.html +++ b/docs/reference/validate_tissue.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_two_phases.html b/docs/reference/validate_two_phases.html index 3100cb7..5d7d915 100644 --- a/docs/reference/validate_two_phases.html +++ b/docs/reference/validate_two_phases.html @@ -18,7 +18,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_uniprot_ids_with_uniprot.html b/docs/reference/validate_uniprot_ids_with_uniprot.html index 87d6bf7..5d93143 100644 --- a/docs/reference/validate_uniprot_ids_with_uniprot.html +++ b/docs/reference/validate_uniprot_ids_with_uniprot.html @@ -21,7 +21,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/validate_yyyymmdd_dates.html b/docs/reference/validate_yyyymmdd_dates.html index cecf57b..62099f3 100644 --- a/docs/reference/validate_yyyymmdd_dates.html +++ b/docs/reference/validate_yyyymmdd_dates.html @@ -17,7 +17,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/write_metabolomics_releases.html b/docs/reference/write_metabolomics_releases.html index af9f40c..f97c8dd 100644 --- a/docs/reference/write_metabolomics_releases.html +++ b/docs/reference/write_metabolomics_releases.html @@ -18,7 +18,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/write_olink_releases.html b/docs/reference/write_olink_releases.html index 3a2f07c..a26e79e 100644 --- a/docs/reference/write_olink_releases.html +++ b/docs/reference/write_olink_releases.html @@ -18,7 +18,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5 diff --git a/docs/reference/write_proteomics_releases.html b/docs/reference/write_proteomics_releases.html index d40443d..6999c41 100644 --- a/docs/reference/write_proteomics_releases.html +++ b/docs/reference/write_proteomics_releases.html @@ -18,7 +18,7 @@ MotrpacBicQC - 0.9.4 + 0.9.5