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Commit 91b44c77 authored by Hernando Martinez Vergara's avatar Hernando Martinez Vergara
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Update README.md

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...@@ -122,11 +122,16 @@ In addition to the data, the scripts for generating registration and producing d ...@@ -122,11 +122,16 @@ In addition to the data, the scripts for generating registration and producing d
### Registration ### Registration
The folder `registration` contains: The folder `registration` contains:
A folder called transfer_ProSPr_data. This folder contains the scripts needed to copy and process the ProSPr output to - `transfer_ProSPr_data`. This folder contains the scripts needed to copy and process the ProSPr output to
'/g/arendt/EM_6dpf_segmentation/platy-browser-data/data/rawdata/prospr'. '/g/arendt/EM_6dpf_segmentation/platy-browser-data/data/rawdata/prospr'.
It reads the .tif files that will be registered to the EM (e.g. MEDs, tissue manual segmentations, reference), It reads the .tif files that will be registered to the EM (e.g. MEDs, tissue manual segmentations, reference),
mirrors them in x axis, adds size information (0.55um/px), and deals with gene names. mirrors them in x axis, adds size information (0.55um/px), and deals with gene names.
run it in the cluster: sbatch ./ProSPr_copy_and_mirror.sh run it in the cluster:
```
sbatch ./ProSPr_copy_and_mirror.sh
```
- `ProSPr_files_for_registration`. The three files to guide the transformation of prospr space into the EM.
### Segmentation ### Segmentation
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