Trevor Lancon tlancon
tlancon
/ reject_outliers.py
Created
June 5, 2020 18:52
Reject outliers from a 1D signal based on a sliding window and a deviation threshold.
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| def reject_outliers(arr, window_size, threshold): | |
| """ | |
| Given a 1D signal, replace outliers with the average of the surrounding points. | |
| Does the following for every point: | |
| 1. Computes the median of the sliding window | |
| 2. Computes the percentage difference between the current point and the | |
| sliding window median | |
| 3. If that deviation exceeds the given threshold, replaces that point with | |
| the average of the surrounding two points. |
tlancon
/ rip_gopro_audio.cmd
Last active
September 29, 2020 14:02
Rips the audio from the all MP4s in the current directory to WAV. Requires FFMPEG.
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| for /r %%f in (*MP4) do ( | |
| ffmpeg -i %%f -q:a 0 -map a "%%~nf.wav" | |
| ) |
tlancon
/ TrainWekaOnMultipleImages.ijm
Created
April 2, 2021 18:00
Train a Weka model on multiple images by stacking slices from them together as a single stack. The stack is the same size in XY as the largest image, and all smaller images are padded with 0's to the lower-right corner to keep their original scale.
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| // Requirements: | |
| // Trainable Weka Segmentation | |
| // The list of files to use for training must be described in a text file, | |
| // with each line containing the full path to one image. | |
| listOfImages = File.openDialog("Choose a file with a list of images:"); | |
| imagesString = File.openAsString(listOfImages); | |
| images = split(imagesString, "\n"); | |
| for (i=0; i<images.length; i++) { |
tlancon
/ copy_lut_napari.py
Last active
June 8, 2021 15:30
Copies the main visualization properties from one layer to another in napari.
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| def copy_lut(from_layer, to_layer, opacity=False): | |
| """ | |
| Copies the visualization properties from one layer to another in napari. | |
| Only the colormap, contrast limits, and gamma values are included by default. | |
| The opacity can be optionally copied as well. | |
| Blending and interpolation are ignored. | |
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