fix issue 299

nf-core · Feb 2, 2024 · 3324a78 · 3324a78
1 parent 59648cc
commit 3324a78
Showing 1 changed file with 3 additions and 3 deletions.
diff --git a/modules/local/mtx_to_seurat.nf b/modules/local/mtx_to_seurat.nf
@@ -20,9 +20,9 @@ process MTX_TO_SEURAT {
     script:
     def aligner = params.aligner
     if (params.aligner in [ 'cellranger', 'cellrangerarc' ]) {
-        matrix   = "matrix.mtx.gz"
-        barcodes = "barcodes.tsv.gz"
-        features = "features.tsv.gz"
+        matrix   = "filtered_feature_bc_matrix/matrix.mtx.gz"
+        barcodes = "filtered_feature_bc_matrix/barcodes.tsv.gz"
+        features = "filtered_feature_bc_matrix/features.tsv.gz"
     } else if (params.aligner == "kallisto") {
         matrix   = "*count/counts_unfiltered/*.mtx"
         barcodes = "*count/counts_unfiltered/*.barcodes.txt"