No colorcode in the KEGG figure

[Elseedy28]

Hello, may be i have wrong input data or code as i am new in pathview , i attached you the file iam using and the code i am using is Data <- read.delim("KEGG IPonly2.csv", sep = ";", header = TRUE) pv.out <- pathview(gene.data = Data[, 1], pathway.id = "04010", species = "hsa", out.suffix = "Data1",kegg.native = TRUE)

and the end product usually two figure with no color map for my input genes, so idon't know if it because of i have bad input or code i tried also the Gaphiz view and i have the same problem

Thanks

KEGG IPonly2.csv

[howtofindme]

Hello, may be i have wrong input data or code as i am new in pathview , i attached you the file iam using and the code i am using is Data <- read.delim("KEGG IPonly2.csv", sep = ";", header = TRUE) pv.out <- pathview(gene.data = Data[, 1], pathway.id = "04010", species = "hsa", out.suffix = "Data1",kegg.native = TRUE)

and the end product usually two figure with no color map for my input genes, so idon't know if it because of i have bad input or code i tried also the Gaphiz view and i have the same problem

Thanks

KEGG IPonly2.csv

same problem, have you solved it and how? thanks

[Elseedy28]

No i didn't solve it till now I hope that there is asolution as i would like to publish these data

Le ven. 21 juil. 2023 à 09:23, youngleel @.***> a écrit :

Hello, may be i have wrong input data or code as i am new in pathview , i attached you the file iam using and the code i am using is Data <- read.delim("KEGG IPonly2.csv", sep = ";", header = TRUE) pv.out <- pathview(gene.data = Data[, 1], pathway.id = "04010", species = "hsa", out.suffix = "Data1",kegg.native = TRUE)

and the end product usually two figure with no color map for my input genes, so idon't know if it because of i have bad input or code i tried also the Gaphiz view and i have the same problem

Thanks

KEGG IPonly2.csv https://github.com/datapplab/pathview/files/9765357/KEGG.IPonly2.csv

same problem, have you solved it and how? thanks

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[raw937]

Are you still having this issue?

If you have the same issues place in: https://github.com/Kannapolis-Bioinformatics/pathview/issues

We can answer your question

many thanks, Rick

[raw937]

You current input ia not KOs. I believe they are geneIDs. What gave you this output?

[raw937]

Gage/pathview need KOs You can use metacerberus at www.github.com/raw-lab/metacerberus