I am trying to run cellranger multi on a set of data, but I am getting this error message:
Requested sample(s) not found in fastq directory "/project/obesity/Multiome_scRNA/RabhiN_PHHGEX_L1_ds.184bc144f4e04350a77f8a912c4b266f/"
Available samples: RabhiN_PHHGEX
I am thinking it probably has something to do with how I am naming things, specifically my samples. I had to make custom CMOs, so I'm thinking that could also be part of the issue.
This is my configuration csv:
This is the CMO csv file:
I followed the naming conventions for my files, here is one of the fastq directories for example:
Any suggestion on what I should change?