diff --git a/flamingo_tools/segmentation/synapse_detection.py b/flamingo_tools/segmentation/synapse_detection.py
index ef27db1..4a12e8d 100644
--- a/flamingo_tools/segmentation/synapse_detection.py
+++ b/flamingo_tools/segmentation/synapse_detection.py
@@ -175,6 +175,11 @@ def marker_detection(
     if os.path.exists(output_path) and prediction_key in zarr.open(output_path, "r"):
         skip_prediction = True
 
+    # skip prediction if post-processed output exists
+    detection_path = os.path.join(output_folder, "synapse_detection.tsv")
+    if os.path.exists(detection_path):
+        skip_prediction = True
+
     if not skip_prediction:
         prediction_impl(
             input_path, input_key, output_folder, model_path,
@@ -182,7 +187,6 @@ def marker_detection(
             apply_postprocessing=False, output_channels=1,
         )
 
-    detection_path = os.path.join(output_folder, "synapse_detection.tsv")
     if not os.path.exists(detection_path):
         input_ = zarr.open(output_path, "r")[prediction_key]
         detections = find_local_maxima(
diff --git a/reproducibility/block_extraction/GEK233L_IHC.json b/reproducibility/block_extraction/GEK233L_IHC.json
new file mode 100644
index 0000000..0ec9aab
--- /dev/null
+++ b/reproducibility/block_extraction/GEK233L_IHC.json
@@ -0,0 +1,41 @@
+[
+	{
+		"cochlea": "G_EK_000233_L",
+		"image_channel": [
+			"Vglut3",
+			"IHC_v6"
+		],
+		"halo_size": [
+			196,
+			196,
+			80
+		],
+		"crop_centers": [
+			[
+				593,
+				1018,
+				276
+			],
+			[
+				674,
+				1048,
+				1574
+			],
+			[
+				788,
+				937,
+				255
+			],
+			[
+				950,
+				1450,
+				380
+			],
+			[
+				1120,
+				875,
+				360
+			]
+		]
+	}
+]
diff --git a/reproducibility/block_extraction/GLR233R_SGN_DA.json b/reproducibility/block_extraction/GLR233R_SGN_DA.json
new file mode 100644
index 0000000..b996e32
--- /dev/null
+++ b/reproducibility/block_extraction/GLR233R_SGN_DA.json
@@ -0,0 +1,50 @@
+[
+	{
+		"cochlea": "G_LR_000233_R",
+		"image_channel": [
+			"PV"
+		],
+		"halo_size": [
+			196,
+			196,
+			196
+		],
+		"crop_centers": [
+			[
+				620,
+				1060,
+				1050
+			],
+			[
+				1555,
+				1170,
+				1230
+			],
+			[
+				1600,
+				1075,
+				1090
+			],
+			[
+				1390,
+				1430,
+				1375
+			],
+			[
+				650,
+				1130,
+				1000
+			],
+			[
+				800,
+				1230,
+				710
+			],
+			[
+				600,
+				1100,
+				1055
+			]
+		]
+	}
+]
diff --git a/reproducibility/block_extraction/GLR233R_SGN_train.json b/reproducibility/block_extraction/GLR233R_SGN_train.json
new file mode 100644
index 0000000..e594322
--- /dev/null
+++ b/reproducibility/block_extraction/GLR233R_SGN_train.json
@@ -0,0 +1,36 @@
+[
+	{
+		"cochlea": "G_LR_000233_R",
+		"image_channel": [
+			"PV",
+			"SGN_v2-DA"
+		],
+		"halo_size": [
+			196,
+			196,
+			48
+		],
+		"crop_centers": [
+			[
+				1584,
+				1570,
+				958
+			],
+			[
+				1474,
+				1655,
+				730
+			],
+			[
+				1275,
+				1604,
+				1324
+			],
+			[
+				1603,
+				1240,
+				1279
+			]	
+		]
+	}
+]
diff --git a/reproducibility/block_extraction/LaVision-M04_SGN.json b/reproducibility/block_extraction/LaVision-M04_SGN.json
new file mode 100644
index 0000000..222f06b
--- /dev/null
+++ b/reproducibility/block_extraction/LaVision-M04_SGN.json
@@ -0,0 +1,25 @@
+[
+	{
+		"cochlea": "LaVision-M04",
+		"image_channel": [
+			"PV"
+		],
+		"resolution" : [
+			1.887779, 
+			1.887779,
+			3.0 
+		],
+		"halo_size": [
+			128,
+			128,
+			64
+		],
+		"crop_centers": [
+			[
+				2550,
+				2340,
+				440
+			]
+		]
+	}
+]
diff --git a/reproducibility/block_extraction/LaVision_IHC_M04.json b/reproducibility/block_extraction/LaVision_IHC_M04.json
new file mode 100644
index 0000000..f1df999
--- /dev/null
+++ b/reproducibility/block_extraction/LaVision_IHC_M04.json
@@ -0,0 +1,41 @@
+[
+	{
+		"cochlea": "LaVision-M04",
+		"image_channel": [
+			"MYO",
+			"IHC_LOWRES-v1"
+		],
+		"resolution" : [
+			1.887779, 
+			1.887779,
+			3.0 
+		],
+		"halo_size": [
+			128,
+			128,
+			32
+		],
+		"crop_centers": [
+			[
+				3118,
+				2840,
+				500
+			],
+			[
+				1540,
+				2075,
+				924
+			],
+			[
+				2135,
+				835,
+				627
+			],
+			[
+				2025,
+				1332,
+				221
+			]
+		]
+	}
+]
diff --git a/reproducibility/block_extraction/LaVision_OTOF_IHC.json b/reproducibility/block_extraction/LaVision_OTOF_IHC.json
new file mode 100644
index 0000000..c660aa4
--- /dev/null
+++ b/reproducibility/block_extraction/LaVision_OTOF_IHC.json
@@ -0,0 +1,84 @@
+[
+	{
+		"cochlea": "LaVision-OTOF23R",
+		"image_channel": [
+			"CR",
+			"IHC_LOWRES-v2"
+		],
+		"resolution" : [
+			1.887779, 
+			1.887779,
+			3.0 
+		],
+		"halo_size": [
+			128,
+			128,
+			48
+		],
+		"crop_centers": [
+			[
+				1360,
+				3450,
+				732
+			],
+			[
+				2408,
+				913,
+				688
+			],
+			[
+				2700,
+				3220,
+				620
+			]
+		]
+	},
+	{
+		"cochlea": "LaVision-OTOF25R",
+		"image_channel": [
+			"CR",
+			"IHC_LOWRES-v2"
+		],
+		"resolution" : [
+			1.887779, 
+			1.887779,
+			3.0 
+		],
+		"halo_size": [
+			128,
+			128,
+			48
+		],
+		"crop_centers": [
+			[
+				2490,
+				3460,
+				875
+			]
+		]
+	},
+	{
+		"cochlea": "LaVision-OTOF36R",
+		"image_channel": [
+			"CR",
+			"IHC_LOWRES-v2"
+		],
+		"resolution" : [
+			1.887779, 
+			1.887779,
+			3.0 
+		],
+		"halo_size": [
+			128,
+			128,
+			48
+		],
+		"crop_centers": [
+			[
+				2558,
+				3415,
+				871
+			]
+		]
+	}
+]
diff --git a/reproducibility/block_extraction/LaVision_SGN_empty.json b/reproducibility/block_extraction/LaVision_SGN_empty.json
new file mode 100644
index 0000000..631d838
--- /dev/null
+++ b/reproducibility/block_extraction/LaVision_SGN_empty.json
@@ -0,0 +1,93 @@
+[
+	{
+		"cochlea": "LaVision-M04",
+		"image_channel": [
+			"PV"
+		],
+		"resolution" : [
+			1.887779, 
+			1.887779,
+			3.0 
+		],
+		"halo_size": [
+			128,
+			128,
+			64
+		],
+		"crop_centers": [
+			[
+				396,
+				1906,
+				383
+			],
+			[
+				830,
+				3390,
+				670
+			],
+			[
+				3520,
+				1525,
+				310
+			],
+			[
+				1867,
+				2538,
+				390
+			],
+			[
+				400,
+				2500,
+				840
+			]
+		]
+	},
+	{
+		"cochlea": "LaVision-Mar05",
+		"image_channel": [
+			"PV"
+		],
+		"resolution" : [
+			1.887779, 
+			1.887779,
+			3.0 
+		],
+		"halo_size": [
+			128,
+			128,
+			64
+		],
+		"crop_centers": [
+			[
+				2247,
+				2434,
+				1660
+			],
+			[
+				1182,
+				2920,
+				726
+			],
+			[
+				2530,
+				1660,
+				1840
+			],
+			[
+				620,
+				1900,
+				1825
+			],
+			[
+				1330,
+				3375,
+				1114
+			],
+			[
+				3442,
+				2950,
+				1000
+			]
+		]
+	}
+]
diff --git a/reproducibility/block_extraction/repro_block_extraction.py b/reproducibility/block_extraction/repro_block_extraction.py
index e6458c0..22943cf 100644
--- a/reproducibility/block_extraction/repro_block_extraction.py
+++ b/reproducibility/block_extraction/repro_block_extraction.py
@@ -16,6 +16,7 @@ def repro_block_extraction(
     s3_flag = True
     tif_flag = True
     input_key = "s0"
+    default_resolution = 0.38
 
     with open(json_file, 'r') as myfile:
         data = myfile.read()
@@ -28,9 +29,11 @@ def repro_block_extraction(
                 input_path = os.path.join(dic["cochlea"], "images", "ome-zarr", image_channel + ".ome.zarr")
                 roi_halo = dic["halo_size"]
                 crop_centers = dic["crop_centers"]
+                resolution = tuple(dic["resolution"]) if "resolution" in dic else default_resolution
                 for coord in crop_centers:
                     extract_block(input_path, coord, output_dir, input_key=input_key,
                                   roi_halo=roi_halo.copy(), tif=tif_flag,
+                                  resolution=resolution,
                                   s3=s3_flag, s3_credentials=s3_credentials, s3_bucket_name=s3_bucket_name,
                                   s3_service_endpoint=s3_service_endpoint)
 
diff --git a/scripts/figures/plot_fig3.py b/scripts/figures/plot_fig3.py
index aec623a..373f43f 100644
--- a/scripts/figures/plot_fig3.py
+++ b/scripts/figures/plot_fig3.py
@@ -16,7 +16,9 @@
 from flamingo_tools.s3_utils import BUCKET_NAME, create_s3_target
 from util import sliding_runlength_sum, frequency_mapping, SYNAPSE_DIR_ROOT, to_alias
 
-INPUT_ROOT = "/home/pape/Work/my_projects/flamingo-tools/scripts/M_LR_000227_R/scale3"
+# INPUT_ROOT = "/home/pape/Work/my_projects/flamingo-tools/scripts/M_LR_000227_R/scale3"
+INPUT_ROOT = "/mnt/vast-nhr/projects/nim00007/data/moser/cochlea-lightsheet/frequency_mapping/M_LR_000227_R/scale3"
+FILE_EXTENSION = "png"
 
 TYPE_TO_CHANNEL = {
     "Type-Ia": "CR",
diff --git a/scripts/measurements/evaluate_marker_annotations.py b/scripts/measurements/evaluate_marker_annotations.py
index d8f2b49..6fc72a7 100644
--- a/scripts/measurements/evaluate_marker_annotations.py
+++ b/scripts/measurements/evaluate_marker_annotations.py
@@ -24,6 +24,8 @@
     "M_LR_000153_R",
     "M_LR_000155_R",
     "M_LR_000189_R",
+    "G_EK_000049_L",
+    "G_EK_000049_R",
 ]
 
 
diff --git a/scripts/measurements/measure_synapses.py b/scripts/measurements/measure_synapses.py
index 38fdcda..826f021 100644
--- a/scripts/measurements/measure_synapses.py
+++ b/scripts/measurements/measure_synapses.py
@@ -1,3 +1,4 @@
+import argparse
 import os
 import json
 
@@ -8,16 +9,39 @@
 
 OUTPUT_FOLDER = "./ihc_counts"
 
+COCHLEAE = [
+    "M_LR_000226_L",
+    "M_LR_000226_R",
+    "M_LR_000227_L",
+    "M_LR_000227_R",
+    "G_EK_000233_L",
+    "G_LR_000233_R",
 
-def check_project(plot=False, save_ihc_table=False, max_dist=None):
-    s3 = create_s3_target()
-    # cochleae = ["M_LR_000226_L", "M_LR_000226_R", "M_LR_000227_L", "M_LR_000227_R", "M_AMD_OTOF1_L"]
-    cochleae = ["M_LR_000226_L", "M_LR_000226_R", "M_LR_000227_L", "M_LR_000227_R"]
+]
+
+
+SYNAPSE_DICT = {
+    "M_LR_000226_L": {"synapse_table_name": "synapse_v3_ihc_v4c", "ihc_table_name": "IHC_v4c"},
+    "M_LR_000226_R": {"synapse_table_name": "synapse_v3_ihc_v4c", "ihc_table_name": "IHC_v4c"},
+    "M_LR_000227_L": {"synapse_table_name": "synapse_v3_ihc_v4c", "ihc_table_name": "IHC_v4c"},
+    "M_LR_000227_R": {"synapse_table_name": "synapse_v3_ihc_v4c", "ihc_table_name": "IHC_v4c"},
+    "G_EK_000233_L": {"synapse_table_name": "synapse_v3_ihc_v6", "ihc_table_name": "IHC_v6"},
+    "G_LR_000233_R": {"synapse_table_name": "synapse_v3_ihc_v6", "ihc_table_name": "IHC_v6"},
+}
 
+
+def check_project(cochleae, output_folder, plot=False, save_ihc_table=False, max_dist=None):
+    s3 = create_s3_target()
     results = {}
     for cochlea in cochleae:
-        synapse_table_name = "synapse_v3_ihc_v4c"
-        ihc_table_name = "IHC_v4c"
+        if cochlea in SYNAPSE_DICT.keys():
+            synapse_table_name = SYNAPSE_DICT[cochlea]["synapse_table_name"]
+            ihc_table_name = SYNAPSE_DICT[cochlea]["ihc_table_name"]
+
+        else:
+            synapse_table_name = "synapse_v3_ihc_v4c"
+            ihc_table_name = "IHC_v4c"
+
         component_id = [1]
 
         if cochlea == "M_AMD_OTOF1_L":
@@ -82,8 +106,8 @@ def check_project(plot=False, save_ihc_table=False, max_dist=None):
                 "run_length": [run_length_dict[ihc_id] for ihc_id in ihc_to_count.keys()],
                 "frequency": [frequency_dict[ihc_id] for ihc_id in ihc_to_count.keys()]
             })
-            os.makedirs(OUTPUT_FOLDER, exist_ok=True)
-            output_path = os.path.join(OUTPUT_FOLDER, f"ihc_count_{cochlea}.tsv")
+            os.makedirs(output_folder, exist_ok=True)
+            output_path = os.path.join(output_folder, f"ihc_count_{cochlea}.tsv")
             ihc_count_table.to_csv(output_path, sep="\t", index=False)
 
     if plot:
@@ -104,7 +128,15 @@ def check_project(plot=False, save_ihc_table=False, max_dist=None):
 
 
 def main():
-    check_project(plot=False, save_ihc_table=True, max_dist=3)
+    parser = argparse.ArgumentParser(
+        description="Assign each segmentation instance a marker based on annotation thresholds."
+    )
+
+    parser.add_argument("-c", "--cochlea", type=str, nargs="+", default=COCHLEAE, help="Cochlea(e) to process.")
+    parser.add_argument("-o", "--output", type=str, default=OUTPUT_FOLDER, help="Output directory.")
+
+    args = parser.parse_args()
+    check_project(args.cochlea, args.output, plot=False, save_ihc_table=True, max_dist=3)
 
 
 if __name__ == "__main__":
diff --git a/scripts/training/sgn_domain_adaptation_gerbil_PV.py b/scripts/training/sgn_domain_adaptation_gerbil_PV.py
index fba2097..192de1a 100644
--- a/scripts/training/sgn_domain_adaptation_gerbil_PV.py
+++ b/scripts/training/sgn_domain_adaptation_gerbil_PV.py
@@ -8,7 +8,7 @@
 
 def get_paths():
     root = "/mnt/vast-nhr/projects/nim00007/data/moser/cochlea-lightsheet/training_data/SGN"
-    folders = ["2025-06-SGN_domain_gerbil_PV"]
+    folders = ["2025-09-SGN_domain_gerbil_GLR233R"]
     train_paths = []
     val_paths = []
     for folder in folders:
@@ -49,7 +49,7 @@ def main():
     parser = argparse.ArgumentParser()
     parser.add_argument("--export_path")
     args = parser.parse_args()
-    name = "sgn-adapted-model_gerbil_PV"
+    name = "sgn-adapted-model_GLR233R_PV"
     if args.export_path is None:
         run_training(name)
     else: