Closed pdimitron closed 8 months ago
Hi @pdimitron
To help pinpoint the exact issue, it would be helpful if you could: 1) run an analysis based on a vignette showcasing the wrapper function. 2) try the "basic_analysis_steps_MISC.Rmd" vignette by using the dev-branch version of this package for now on (https://github.com/saeyslab/multinichenetr/blob/dev-branch/vignettes/basic_analysis_steps_MISC.Rmd).
Do you run into troubles for one of those as well?
Hi @browaeysrobin, when I ran it with the wrapper function all was well and it actually pointed me to the source of the issue.
When setting up the contrasts, I followed the notation carefully when putting in my own variables, but then I realized the contrasts argument in contrasts_tbl has a slightly difference format. I was able to fix the issue.
Thank you for responding!
Hello,
I love the new MultiNichetNet Package and have been using it for some time now. I'm running into a challenge that I'm unsure how to fix. Everything is running smoothly up until the _generate_prioritizationtables step. It appears that my prioritization table by group is empty, although my prioritization table by sample is populated.
I was looking back at different objects and the grouping table seems fine, but I can't tell if anything else is amiss. Do you have any suggestions? Is there a threshold that I might need to play with?