I have a dataset that was run at two different time on our mass spec and searched in spectronaut. There is an obvious batch effect based on when the samples were run/prepped and I'm trying to use HarmonizR to correct this. I've formatted the input and description files just like your examples but am still getting the following error. I've got no issues running your example murine_medulloblastoma data through it so I know I've got everything installed correctly. I'm guessing it has something to do with how my data is formatted. I added a subset of my input and the description data. I was hoping you could take a look and let me know if anything seems off to you.
Hello Simon,
I have a dataset that was run at two different time on our mass spec and searched in spectronaut. There is an obvious batch effect based on when the samples were run/prepped and I'm trying to use HarmonizR to correct this. I've formatted the input and description files just like your examples but am still getting the following error. I've got no issues running your example murine_medulloblastoma data through it so I know I've got everything installed correctly. I'm guessing it has something to do with how my data is formatted. I added a subset of my input and the description data. I was hoping you could take a look and let me know if anything seems off to you.
spl_example_description.csv spl_example_input.csv
Thank you very much, Scott
p.s I had to change the input from .tsv to .csv for github to accept.