Hello,

How can I figure out this?

Thanks in advance!

> head(huang_group_list)
                  x
1    549_repair.bam
2      6_repair.bam
3  6plus_repair.bam
4     14_repair.bam
5 14plus_repair.bam

> colData
                                   x
X549_repair.bam       549_repair.bam
X6_repair.bam           6_repair.bam
X6plus_repair.bam   6plus_repair.bam
X14_repair.bam         14_repair.bam
X14plus_repair.bam 14plus_repair.bam

> dds <- DESeqDataSetFromMatrix(countData = huang_exprSet, colData = colData, design = ~ huang_group_list)
Error in DESeqDataSet(se, design = design, ignoreRank) :
  all variables in design formula must be columns in colData

Actually, I try to paste

> head(huang_exprSet)
                  X549_repair.bam X6_repair.bam X6plus_repair.bam
ENSG00000223972.5               2             0                 0
 

 X14_repair.bam X14plus_repair.bam
ENSG00000223972.5              1                  0

It always said:  Language "af" is not one of the supported languages ['en']!

The error says what the problem is:

Error in DESeqDataSet(se, design = design, ignoreRank) :
  all variables in design formula must be columns in colData

So you have to have a column in your colData object called 'huang_group_list'. And given that the underscores won't pass R's make.names filter, you might now have huang.group.list as the column name.