DESeq run error

Question

[Alex]

Hi,everyone, while I use the DESeq2 software to analysis DEGs,it appear some errors while I an confused of it . my data is

                     millit_cool_A7 millit_cool_A8 millit_cool_A9 millit_normal_A1 millit_normal_A2 

TRINITY_DN7591_c0_g1_i1           2.00           0.00           3.16             2.00             3.00             

TRINITY_DN97559_c0_g1_i1           0.00           4.00           0.00             0.00             0.00             

TRINITY_DN19560_c0_g1_i1           5.00           2.00           4.00             1.00             1.00             

TRINITY_DN38111_c1_g3_i2          85.58          63.63           9.69            36.46            14.30            

TRINITY_DN33086_c0_g1_i2         237.00         269.00         187.00           191.00           404.00

my colData format is

     name condition
CA_1 CA_1        CA

CA_2 CA_2        CA

CA_3 CA_3        CA

CC_1 CC_1        CC

CC_2 CC_2        CC

run the DEseq the error is :

dds <- DESeqDataSetFromMatrix(countData=data,colData=colData,design=~condition)
    Error in DESeqDataSet(se, design = design, ignoreRank) : 
      some values in assay are not integers

my data have errors?

Alex

Answer 1

[WouterDeCoster]

The error is perfectly clear. It tells you some values in your assay are not integers. You counts data should exclusively contain integers, and for example 63.63 is an invalid input.

[Alex]

As you say ,my data may be need integers . Thanks I know