fix #46: header of file was not read when .txt

R/DeconvExplorer.R

@@ -1598,7 +1598,6 @@ DeconvExplorer <- function(deconvexp_bulk = NULL,
       }
     )
 
-
     # plot interactive heatmap
     observe({
       req(
@@ -2026,7 +2025,7 @@ DeconvExplorer <- function(deconvexp_bulk = NULL,
 
       # load file, depending on extension
       if (ext == "txt") {
-        content <- utils::read.table(path)
+        content <- utils::read.table(path, header = T)
       } else if (ext == "csv") {
         content <- vroom::vroom(path, delim = ",")
       } else if (ext == "tsv") {

inst/extdata/app_information.md

@@ -27,21 +27,11 @@ uploaded as txt as well.**
   - Vector containing gene names
   - This is only necessary for BSeq-sc
 
-#### SimBu Simulation
-
-If no ground truth data is available for your bulk dataset you can
-benchmark by simulating a pseudo-bulk sample with known cell type
-fraction using SimBu. To transfer your simulation to DeconvExplorer save
-it in rds format and upload it to retrieve the simulated bulk file and
-the corresponding ground truth.
-
-    simulation <- SimBu::simulate_bulk(...)
-    saveRDS(simulation, 'filepath.rds') # upload this file
 
 #### Custom Signature and Ground Truth Reference
 
-Please make sure the first column contains gene identifiers matching the
-bulk sample.
+The signature matrix you upload, needs to have gene symbols as the first column. The other columns need to be cell types,
+which signature-specific values in each cell. 
 
 # Deconvolution