How to solve problem with error : $ operator is invalid for atomic vectors?

[TPlatek]

Hello,
I am trying to analyse my methylation DNA EPIC v 2.0 arrays with sesame.
I am using windows and really new to R and Sesame.

After the code:
readIDATpair("208133980083_R01C01","manifest=mft")
There is an error:
Error in mft$col : $ operator is invalid for atomic vectors.

Could everyone please advise me how to solve this problem?

list.files(pattern = "*.idat")
library(sesame)
s=readIDATpair("208133980083_R01C01")
s
mft <- read.csv("C:/Wyniki_EPIC_GenomeScan/Dane/R/EPICv2.0manifest/EPIC-8v2-0_A1.csv",
header = T, stringsAsFactors = F, na.strings = c("NA", ""))
setwd("C:/Wyniki_EPIC_GenomeScan/Dane/R")
mft <- read.csv("C:/Wyniki_EPIC_GenomeScan/Dane/R/EPICv2.0manifest/EPIC-8v2-0_A1.csv",
header = T, stringsAsFactors = F, na.strings = c("NA", ""))
head(mft)
readIDATpair("208133980083_R01C01","manifest=mft")

Error in mft$col : $ operator is invalid for atomic vectors

[zwdzwd]

Hi, what's your version number with sesame_checkVersion()? sounds like it's a version issue.

[TPlatek]

Hi, Here are my packages versions:

sesame_checkVersion()

SeSAMe requires matched versions of R, sesame, sesameData and ExperimentHub. Here is the current versions installed: R: 4.3.3 Bioconductor: 3.18 sesame: 1.20.0 sesameData: 1.20.0 ExperimentHub: 2.10.0 Kind regards, Teresa Płatek W dniu 2024-04-15 13:17, Wanding Zhou - Bioinformatics napisał(a):

…

Hi, what's your version number with sesame_checkVersion()? sounds like it's a version issue. -- Reply to this email directly, view it on GitHub [1], or unsubscribe [2]. You are receiving this because you authored the thread.Message ID: ***@***.***> Links: ------ [1] #158 (comment) [2] https://github.com/notifications/unsubscribe-auth/BH2UCOEPTE3KOPWVAAUFVL3Y5OZMNAVCNFSM6AAAAABGG4OZM2VHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDANJWGU4DCNBSGE

[zwdzwd]

for this version, I don't think you need mft argument. EPICv2 is supported by default. Have you tried just readIDATpair("208133980083_R01C01")