From 796a718b275380c5d6731a57788d579c5e66962b Mon Sep 17 00:00:00 2001
From: Christian Kento Rasmussen <christian.kento@gmail.com>
Date: Fri, 17 Jan 2025 14:16:16 +0100
Subject: [PATCH] added mean based scaling method
---
qim3d/io/_ome_zarr.py | 14 ++++++++++++++
1 file changed, 14 insertions(+)
diff --git a/qim3d/io/_ome_zarr.py b/qim3d/io/_ome_zarr.py
index 6573831a..022e16cd 100644
--- a/qim3d/io/_ome_zarr.py
+++ b/qim3d/io/_ome_zarr.py
@@ -178,6 +178,20 @@ class OMEScaler(
log.info(f"- Scale {i+1}: {rv[-1].shape}")
return list(rv)
+
+ def scaleZYXmean(self, base):
+ """ Downsample using the mean of the pixels in each block
+
+ Args:
+ base (dask): The 3D array (volume) to be downsampled. Must be a Dask array for chunked processing.
+
+ Returns:
+ list: A list of downsampled volumes of increasingly lower resolution.
+ """
+ mip = [base]
+ for _ in range(self.max_layer):
+ mip.append(da.coarsen(da.mean, mip[-1], {0:self.downscale, 1:self.downscale, 2:self.downscale}, trim_excess=True))
+ return mip
def export_ome_zarr(
--
GitLab