update gtexr_arguments() tibble to explicitly list `tissueSiteDetailI…

…d` options
rmgpanw · Jun 26, 2024 · de9ad9f · de9ad9f
1 parent 65f6642
commit de9ad9f
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/R/gtexr_arguments.R b/R/gtexr_arguments.R
@@ -156,8 +156,8 @@ gtexr_arguments <- function() {
     "start", "integer", TRUE, FALSE, "numericInput", c(0, 250000000),
     "subjectIds", "character", TRUE, TRUE, "textAreaInput", NA,
     "tissueSampleIds", "character", FALSE, TRUE, "textAreaInput", NA,
-    "tissueSiteDetailId", "character", TRUE, FALSE, "selectInput", available_tissueSiteDetailIds()$tissue,
-    "tissueSiteDetailIds", "character", FALSE, TRUE, "selectizeInput", available_tissueSiteDetailIds()$tissue,
+    "tissueSiteDetailId", "character", TRUE, FALSE, "selectInput", c("Adipose_Subcutaneous", "Adipose_Visceral_Omentum", "Adrenal_Gland", "Artery_Aorta", "Artery_Coronary", "Artery_Tibial", "Bladder", "Brain_Amygdala", "Brain_Anterior_cingulate_cortex_BA24", "Brain_Caudate_basal_ganglia", "Brain_Cerebellar_Hemisphere", "Brain_Cerebellum", "Brain_Cortex", "Brain_Frontal_Cortex_BA9", "Brain_Hippocampus", "Brain_Hypothalamus", "Brain_Nucleus_accumbens_basal_ganglia", "Brain_Putamen_basal_ganglia", "Brain_Spinal_cord_cervical_c-1", "Brain_Substantia_nigra", "Breast_Mammary_Tissue", "Cells_EBV-transformed_lymphocytes", "Cells_Cultured_fibroblasts", "Cervix_Ectocervix", "Cervix_Endocervix", "Colon_Sigmoid", "Colon_Transverse", "Esophagus_Gastroesophageal_Junction", "Esophagus_Mucosa", "Esophagus_Muscularis", "Fallopian_Tube", "Heart_Atrial_Appendage", "Heart_Left_Ventricle", "Kidney_Cortex", "Kidney_Medulla", "Liver", "Lung", "Minor_Salivary_Gland", "Muscle_Skeletal", "Nerve_Tibial", "Ovary", "Pancreas", "Pituitary", "Prostate", "Skin_Not_Sun_Exposed_Suprapubic", "Skin_Sun_Exposed_Lower_leg", "Small_Intestine_Terminal_Ileum", "Spleen", "Stomach", "Testis", "Thyroid", "Uterus", "Vagina", "Whole_Blood"),
+    "tissueSiteDetailIds", "character", FALSE, TRUE, "selectizeInput", c("Adipose_Subcutaneous", "Adipose_Visceral_Omentum", "Adrenal_Gland", "Artery_Aorta", "Artery_Coronary", "Artery_Tibial", "Bladder", "Brain_Amygdala", "Brain_Anterior_cingulate_cortex_BA24", "Brain_Caudate_basal_ganglia", "Brain_Cerebellar_Hemisphere", "Brain_Cerebellum", "Brain_Cortex", "Brain_Frontal_Cortex_BA9", "Brain_Hippocampus", "Brain_Hypothalamus", "Brain_Nucleus_accumbens_basal_ganglia", "Brain_Putamen_basal_ganglia", "Brain_Spinal_cord_cervical_c-1", "Brain_Substantia_nigra", "Breast_Mammary_Tissue", "Cells_EBV-transformed_lymphocytes", "Cells_Cultured_fibroblasts", "Cervix_Ectocervix", "Cervix_Endocervix", "Colon_Sigmoid", "Colon_Transverse", "Esophagus_Gastroesophageal_Junction", "Esophagus_Mucosa", "Esophagus_Muscularis", "Fallopian_Tube", "Heart_Atrial_Appendage", "Heart_Left_Ventricle", "Kidney_Cortex", "Kidney_Medulla", "Liver", "Lung", "Minor_Salivary_Gland", "Muscle_Skeletal", "Nerve_Tibial", "Ovary", "Pancreas", "Pituitary", "Prostate", "Skin_Not_Sun_Exposed_Suprapubic", "Skin_Sun_Exposed_Lower_leg", "Small_Intestine_Terminal_Ileum", "Spleen", "Stomach", "Testis", "Thyroid", "Uterus", "Vagina", "Whole_Blood"),
     "uberonIds", "character", FALSE, TRUE, "selectizeInput", c("UBERON:EFO_0000572", "UBERON:EFO_0002009", "UBERON:0000007", "UBERON:0000458", "UBERON:0000473", "UBERON:0000945", "UBERON:0000992", "UBERON:0000995", "UBERON:0000996", "UBERON:0001114", "UBERON:0001150", "UBERON:0001157", "UBERON:0001159", "UBERON:0001211", "UBERON:0001225", "UBERON:0001255", "UBERON:0001293", "UBERON:0001323", "UBERON:0001496", "UBERON:0001621", "UBERON:0001870", "UBERON:0001873", "UBERON:0001874", "UBERON:0001876", "UBERON:0001882", "UBERON:0001898", "UBERON:0001954", "UBERON:0002037", "UBERON:0002038", "UBERON:0002046", "UBERON:0002106", "UBERON:0002190", "UBERON:0002367", "UBERON:0002369", "UBERON:0003889", "UBERON:0004264", "UBERON:0004550", "UBERON:0004648", "UBERON:0006330", "UBERON:0006469", "UBERON:0006566", "UBERON:0006631", "UBERON:0006920", "UBERON:0007610", "UBERON:0008367", "UBERON:0008952", "UBERON:0009834", "UBERON:0009835", "UBERON:0010414", "UBERON:0011907", "UBERON:0012249", "UBERON:0013756", "UBERON:0036149"),
     "variantId", "character", TRUE, FALSE, "textInput", NA,
     "variantIds", "character", FALSE, TRUE, "textAreaInput", NA