bug fix

FertigLab · May 20, 2024 · 86729d5 · 86729d5
1 parent 484dd33
commit 86729d5
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/modules/local/spacemarkers.nf b/modules/local/spacemarkers.nf
@@ -32,14 +32,14 @@ process SPACEMARKERS {
     mkdir "${prefix}"
     Rscript -e 'library("SpaceMarkers");
       dataMatrix <- load10XExpr("$data");
-      
       keepGenes <- rownames(dataMatrix);
       keepGenes <- keepGenes[which(apply(dataMatrix,1,sum) > 10)];
       dataMatrix <- dataMatrix[keepGenes,]
       
       coords <- load10XCoords("$data");
       features <- getSpatialFeatures("$cogapsResult");
       spPatterns <- cbind(coords, features);
+      
       saveRDS(spPatterns, file = "${prefix}/spPatterns.rds");
 
       #temp fix to remove barcodes with no spatial data