Fix plot clustering clean scale, qc plot for mm10

config/config.yaml

@@ -140,6 +140,7 @@ window: 200000
 
 # Enable / Disable blacklisting of difficult mappable regions
 blacklist_regions: True
+blacklist_regions_for_qc_plot: False
 
 # Enable or disable hand selection through the Jupyter Notebook
 hand_selection: False
@@ -183,7 +184,7 @@ additional_sce_cutoff: 20000000
 sce_min_distance: 500000
 
 # Phasing parameters
-snv_nb_threshold_for_strandphaser: 20
+snv_nb_threshold_for_strandphaser: 100
 
 # --------------------------------------------------------
 # Downstream modules configuration - genome browsing

watchdog_pipeline/excluded_samples.yaml

@@ -1,15 +1,20 @@
 excluded_samples:
-  - "PDAC60590"  # MICE
-  - "PDAC60590MNI"  # MICE
-  - "DXR30hMaja"  # MICE
-  - "DXR42hMaja"  # MICE
-  - "GM19705"  # ERROR to investigate
-  - "OrgxDoxocx02"  # ERROR Multistep
-  - "GM20355x01"  # ERROR Multistep
-  - "10uMDXR42hx01"  # ERROR Multistep
-  - "mESCx01"  # ERROR Multistep
-  - "DXR100nMxS2x01"  # ERROR Multistep
-  - "MRD48hx02"  # ERROR Multistep
-  - "RPEx03"  # ERROR Only 48 cells
+  - "GM19705" # ERROR to investigate
+  - "OrgxDoxocx02" # ERROR Multistep
+  - "GM20355x01" # ERROR Multistep
+  - "10uMDXR42hx01" # ERROR Multistep
+  - "mESCx01" # ERROR Multistep
+  - "DXR100nMxS2x01" # ERROR Multistep
+  - "MRD48hx02" # ERROR Multistep
+  - "RPEx03" # ERROR Only 48 cells
   # OLD
-  - "ckAML02x02"  # ashleys_library_size_normalisation
+  - "ckAML02x02" # ashleys_library_size_normalisation
+
+tagged_samples:
+  mm10:
+    - "PDAC60590" # MICE
+    - "PDAC60590MNI" # MICE
+    - "DXR30hMaja" # MICE
+    - "DXR42hMaja" # MICE
+    - "LanexLorenzoNPCAPH24hnewSortUVLED"
+    - "LanexLorenzoNPCDMSO18holdSortUVLED"