22
33[ ![ DOI] ( https://zenodo.org/badge/156891364.svg )] ( https://zenodo.org/badge/latestdoi/156891364 )
44
5- ## Python convenience helpers
6-
75This package contains a diverse collection of Python functions dealing with
86paths, I/O (file handles, ...), strings etc. and tons of [ Fiji] [ fiji ] /
97[ ImageJ2] [ imagej ] convenience wrappers to simplify scripting and reduce
@@ -12,8 +10,8 @@ cross-script redundanciees.
1210Initially this has been a multi-purpose package where a substantial part had
1311been useful in ** CPython** as well. However, since the latest Jython
1412release is still based on Python 2.7 (see the [ Jython 3 roadmap] [ jython3 ] for
15- more info), * imcflibs* is now basically limited to the ** Fiji/ ImageJ2
16- ecosystem** (which is also the reason there is no ` pip install ` able package
13+ more info), * imcflibs* is now basically limited to the ** Fiji / ImageJ2
14+ ecosystem** (which is also the reason why no ` pip install ` able package is
1715provided).
1816
1917Releases are made through Maven and published to the [ SciJava Maven
@@ -23,10 +21,6 @@ Uni Basel`** [update site][imcf_updsite] to your ImageJ installation.
2321Developed and provided by the [ Imaging Core Facility (IMCF)] [ imcf ] of the
2422Biozentrum, University of Basel, Switzerland.
2523
26- ## Contents
27-
28- See the [ API documentation] [ apidocs ] for the package contents.
29-
3024## Example usage
3125
3226### Shading correction / projection
@@ -57,6 +51,5 @@ correct_and_project(raw_image, out_path, model, "Maximum", ".ics")
5751[ jython3 ] : https://www.jython.org/jython-3-roadmap
5852[ sj_maven ] : https://maven.scijava.org/#nexus-search;gav~ch.unibas.biozentrum.imcf~~~~
5953[ imcf_updsite ] : https://imagej.net/list-of-update-sites/
60- [ apidocs ] : https://imcf.one/apidocs/imcflibs/
6154[ script_split ] : https://github.com/imcf/imcf-fiji-scripts/blob/master/src/main/resources/scripts/Plugins/IMCF_Utilities/Convert/Split_TIFFs_By_Channels_And_Slices.py
6255[ script_fvstitch ] : https://github.com/imcf/imcf-fiji-scripts/blob/master/src/main/resources/scripts/Plugins/IMCF_Utilities/Stitching_Registration/FluoView_OIF_OIB_OIR_Simple_Stitcher.py
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