'Stitch' is a tool for stitching together tiff images within a directory, utilising the ImageJ Grid/Collection plugin, and performing this stitching for multiple directories (each containing a tiff series) in a batch process. The original purpose was to batch stitch the output of microscopy using an aurox clarity microscope; with a typical output being many directories containing .tiff files to be stitched, a positions.csv file (with tile positions) and a companion.ome metadata file. However, this programme can also be used for batch processing ONLY using a companion.ome metadata file associated with a tiff series.
Stitch is used in Python >= 3 environment.
Stitch is used by executing 'stitch_RUN.py', which by default opens up a graphical user interface. Refer to Stitch_user_manual.pdf for full usage instructions.
Jack Morikka - [Mattila laboratory](https://www.helsinki.fi/en/researchgroups/metabolism-and-signaling)
Jorge Fuentes
Josef Gullmets - [Hietakangas laboratory](https://www.helsinki.fi/en/researchgroups/nutrient-sensing/)
Ville Hietakangas - [Hietakangas laboratory](https://www.helsinki.fi/en/researchgroups/nutrient-sensing/)
Jaakko Mattila - [Mattila laboratory](https://www.helsinki.fi/en/researchgroups/metabolism-and-signaling/)
'Stitch' uses the ImageJ Grid/Collection plugin which is based on a bioinformatics publication:
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2682522/
doi: 10.1093/bioinformatics/btp184
Image of Disney character 'Stitch'. Under 'personal use only' license this image can
be used and distributed for non-commercial use.
https://www.pngitem.com/middle/mxxwb_tumblr-stitch-disney-liloestitch-liloandstitch-cute-disney-characters/