Question: FGNET package - format_david error
0
gravatar for juan-pablo.cerapio-arroyo
2.6 years ago by
France/Paris/Institut Pasteur

Good morning,

Im working with FGNet package for enrichment analysis. It was working everything good. 

I normally make the functional analysis in DAVID website and them extract the file with format_david.

this is my code:

david_website <- "is the link of the website results"

geneLabels <- "list of genes with names"

feaResults_David <- format_david("david_website", geneLabels = geneLabels)

Them, the message is:

Raw results downloaded and saved as 413104_DavidClustering_raw.txt' 

Error in `[<-.data.frame`(`*tmp*`, otherAnnot, "Terms", value = list("Mitochondrion (ID transit peptide)",  : 

  replacement element 847 has 2 rows, need 1435

So the file is downloading good (i could see it in my working directory), but apparently it have a problem to structure it in dataframe using "format_david", i really dont know what is happened (i now is pretty clear that it said is about the size where it have 2 rows and need 1435). I got what the message said but i dont know how to manage the data frame to let it fit, because it supposed that format_david make that. I already look inf format_david options to see if i could manage it but it is no possible.

I hope someone could help.

Thanks

 

ADD COMMENTlink written 2.6 years ago by juan-pablo.cerapio-arroyo10
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 213 users visited in the last hour