updated cellranger template

imperial-genomics-facility · Dec 11, 2023 · 7ba4212 · 7ba4212
1 parent 7bab0a8
commit 7ba4212
Showing 1 changed file with 3 additions and 1 deletion.
diff --git a/app/raw_analysis/CELLRANGER_MULTI_template_v1.txt b/app/raw_analysis/CELLRANGER_MULTI_template_v1.txt
@@ -36,7 +36,9 @@ analysis_metadata:
     - "#sample_id,cmo_ids,description"
     - "#[samples] # for Fixed RNA Profiling multiplexed libraries only"
     - "#sample_id,probe_barcode_ids,description"
-  scanpy:
+  scanpy_config:
+    TEMPLATE_FILE: /project/tgu/software/scanpy-notebook-image/templates/scanpy_single_sample_analysis_v0.0.6.3.ipynb
+    IMAGE_FILE: /project/tgu/resources/pipeline_resource/singularity_images/scanpy-notebook-image/scanpy-notebook-image_v0.0.4.sif
     MITO_PREFIX: MT-
     RUN_SCRUBLET: true
     RUN_CELLCYCLE_SCORE: true