Hi! Thank you for making this amazing tool! I have been reference mapping my clusters from my scRNA-seq data onto my MERSCOPE data using the run_together function in FICTURE with --decode-from-external-model. The pipeline works well aside from a couple issues which I was able to work around, but just wanted to share in case it is helpful for posterity.
- In the *.pixel.sorted.tsv.gz file, the K value defaults to the name of the external model file rather than to the specified cluster number. This becomes a problem when run_together tries to run plot_pixel_single since it is looking for a numerical value. I circumvented this by changing the K value manually and then re-running plot_pixel_single with the modified *.pixel.sorted.tsv.gz and it works, but was wondering if this issue could be fixed somehow for the future.
- Changing colors using cmap when running plot_pixel_single doesn't work as it always defaults to 'plasma'
Hi! Thank you for making this amazing tool! I have been reference mapping my clusters from my scRNA-seq data onto my MERSCOPE data using the run_together function in FICTURE with --decode-from-external-model. The pipeline works well aside from a couple issues which I was able to work around, but just wanted to share in case it is helpful for posterity.