[Methylkit]-Error in validObject(.Object) :
0
0
Entering edit mode
liulip • 0
@liulip-20283
Last seen 23 months ago
China

Hi there,

I just got a problem with methRead function in the R package Methylkit, hope you guys can help me:)

This is my CpG dataset: enter image description here

My code is as followed:

setwd("/data/Users/llp/worl/RRBS/cov")

file.list=list("P1_1.txt","P1_2.txt","P7_1.txt","P7_2.txt")

myobj=methRead(file.list,
               sample.id=list("P1_1","P1_2","P7_1","P7_2"),
               assembly="mm10",
               treatment=c(0,0,1,1),
               context="CpG",
               mincov = 5)

Here is the wrong message I keep receiveing:

Error in validObject(.Object) : 
  invalid class “methylRaw” object: superclass "vector_OR_Vector" not defined in the environment of the object's class

Thank you very much in advance!

Elaine liu

methRead methylkit • 756 views
ADD COMMENT
0
Entering edit mode

I made it !

update S4Vectors from 0.20.0 to 0.24.4 & BiocGenerics from 0.30.0 to 0.32.0, it works~

ADD REPLY

Login before adding your answer.

Traffic: 745 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6