User: 897776177

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8977761770
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Posts by 897776177

<prev • 10 results • page 1 of 1 • next >
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Answer: A: Bsseq problem error at least two dimensions
... hello, again,thanks for your persistent help! it seems it works with me after i name the data,here is all my command,i hope this may help: library(bsseq) setwd("/home/dnamethylation/testbsseq") data <- list.files(path="/home/dnamethylation/testbsseq", pattern = "*.cov") bismarkbs ...
written 4 days ago by 8977761770 • updated 4 days ago by Devon Ryan88k
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Comment: C: Bsseq problem error at least two dimensions
... sorry, i put the wrong command:keepLoci.ex <- which(rowSums(BS.cov[, bismarkbsseq5$Type == "A", drop=F] >= 2) >= 2 & rowSums(BS.cov[, bismarkbsseq5$Type == "B", drop=F] >= 2) >= 2) Error in rowSums(BS.cov[, bismarkbsseq5$Type == "A", drop = F] >= 2) : 'x' must be an array of ...
written 4 days ago by 8977761770
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Comment: C: Bsseq problem error at least two dimensions
... thanks for your help! after i change my command into: bismarkbsseq5 <- read.bismark(files = data, sampleNames = gsub(".cov", "", c("A1","B1","A2","B2")), rmZeroCov = TRUE, strandCollapse = FALSE) bsseq_bsmooth5 <- BSmooth(bismarkbsseq5, verbose = TRUE, mc.cores = 24) BS.cov <- getCoverage( ...
written 4 days ago by 8977761770
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Comment: C: Bsseq problem error at least two dimensions
... i have try to change the name in BSmooth(), but i can not put them into the command. here is the user_guidence instruction: BSmooth(BSseq, ns = 70, h = 1000, maxGap = 10^8, keep.se = FALSE, BPPARAM = bpparam(), chunkdim = NULL, level = NULL, verbose = getOption("verbose")) ,it seems i can not put th ...
written 4 days ago by 8977761770
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Comment: C: Bsseq problem error at least two dimensions
... thanks for your reply, now i have change my command to : bismarkbsseq5 <- read.bismark(files = data, sampleNames = gsub(".cov", "", c("A1","B1","A2","B2")), rmZeroCov = TRUE, strandCollapse = FALSE), and i hope this may works, but i still do not know "SSA" "normal" represent what meaning, if it ...
written 4 days ago by 8977761770
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Comment: C: Bsseq problem error at least two dimensions
... thank you so much for your reply.do you mean i should change the command like this? bismarkbsseq <- read.bismark(files = data, sampleNames = gsub(".cov", "", data), colData=c("a1","a2","b1","b2"), rmZeroCov = TRUE, strandCollapse = FALSE) but when i change the command, it gives me such error mes ...
written 5 days ago by 8977761770
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Bsseq problem error at least two dimensions
... hello,everyone. i am a new learner on bioinformatics. recently, i have use the bsseq software to deal with the data. but i have meet some error message. which i can not solve. here is my code: library(bsseq) setwd("/home/dnamethylation/testbsseq") data <- list.files(path="/home/dname ...
software error written 5 days ago by 8977761770
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methylSeekR error about missing value
... hello,everyone. i have meet an error with the software MethylSeekR. when i try to use the readMethylome function to read the data. it posts such error. Error in validObject(.Object) : invalid class “GRanges” object: 'seqnames(x)' contains missing values. however when i try to use the sum(is.na(filen ...
software error written 16 days ago by 8977761770
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Comment: C: BSmooth.tstat error due to NA
... hello,Taiki,after you give me such advice, i try to converted it to matrix,but i gives me such error message:Error in as.vector(x),There is no way to force this S4 category to become a vector, here is my command:bsseq_data <- as.matrix(bsseq_bsmooth), would you please give me some suggestion? wha ...
written 3 months ago by 8977761770
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Comment: A: BSmooth.tstat error due to NA
... hello,Taiki I use bsseq package for WGBS data analysis. and i meet the same problem just as you,do you find any solution?would you please give me some advice? i am really need your help. Best wishes xia ...
written 3 months ago by 8977761770

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