Error: Please check your options for split.by and your celltypes.

[TehseusKunka]

When using "plot_cpdb"function, I have checked the colnames of cell type and the names of each cells, it still comes error with " Please check your options for split.by and your celltypes."

How can I deal with this problems, thank you.

[zktuong]

hi @TehseusKunka,

In your input to cellphonedb's meta.txt, your second column must look like this: {pN}_{cellTypeLabel}

so that the output columns will be populated that way as well.

if the column names in your cellphonedb output is just cellTypeLabel|cellTypeLabel, then then split.by option will not work and should not be specified.

This can be seen if you take a look at the example means and means2 that comes with ktplots:

> data(cpdb_output)
> data(cpdb_output2)
> head(colnames(means), 15)
 [1] "id_cp_interaction"                   "interacting_pair"                    "partner_a"                          
 [4] "partner_b"                           "gene_a"                              "gene_b"                             
 [7] "secreted"                            "receptor_a"                          "receptor_b"                         
[10] "annotation_strategy"                 "is_integrin"                         "PapRCC_MNPb(mono)|PapRCC_MNPb(mono)"
[13] "PapRCC_MNPb(mono)|PapRCC_NK cell"    "PapRCC_MNPb(mono)|RCC1_CD4T cell"    "PapRCC_MNPb(mono)|RCC1_CD8T cell"   
> head(colnames(means2), 15)
 [1] "id_cp_interaction"   "interacting_pair"    "partner_a"           "partner_b"           "gene_a"             
 [6] "gene_b"              "secreted"            "receptor_a"          "receptor_b"          "annotation_strategy"
[11] "is_integrin"         "B cell|B cell"       "B cell|CD4T cell"    "B cell|CD8T cell"    "B cell|MNPa(mono)" 

So means will work with the split.by option whereas means2 will not

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[Pedramto89]

When I get a head from means, this is the result:

`head(colnames(means))

[1] "id_cp_interaction" "interacting_pair" "partner_a" "partner_b"
[5] "gene_a" "gene_b"`