resolve this: https://jhu-genomics.slack.com/archives/CR9NYA0BF/p1652035798464949. need to go back change the FilterByExpr use in pseudobulking code. look at latest visium_IF_AD. switch column names from low to high so it's self-explanatory. make sure to use group argument in order to keep more genes. need to make different pseudobulked objects for each differential expression analysis. group by region for region DE analysis.
resolve this: https://jhu-genomics.slack.com/archives/CR9NYA0BF/p1652035798464949. need to go back change the FilterByExpr use in pseudobulking code. look at latest visium_IF_AD. switch column names from low to high so it's self-explanatory. make sure to use group argument in order to keep more genes. need to make different pseudobulked objects for each differential expression analysis. group by region for region DE analysis.