Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
MethylationArray
•
reset
0
votes
0
replies
86
views
TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray
normalize450K
TCGAbiolinks
Normalization
MethylationArrayData
13 days ago • updated 2 hours ago
Giovanni Calice
▴ 160
0
votes
1
reply
153
views
Error in GOmeth function of missMethyl when EPICv2 annotation is used
DNAMethylation
GO
MethylationArray
missMethyl
EPICv2
updated 14 days ago by
belinda.phipson
▴ 40 • written 14 days ago by
saad.malik
• 0
0
votes
11
replies
547
views
Strange logFC values in differential methylation site anslysis
edgeR
MethylationArray
updated 14 days ago by
Gordon Smyth
50k • written 21 days ago by
mico
• 0
1
vote
0
replies
99
views
Rnaseq sample barcode does not match barcode from TCGA Methylation data
TCGAMethylation450k
MethylationArray
TCGAbiolinks
Tcga
TCGAbiolinksGUI.data
21 days ago
BioinfoMug
• 0
1
vote
6
replies
335
views
Library size normalization in methylation count analysis
edgeR
MethylationArray
21 days ago
mico
• 0
1
vote
1
reply
181
views
Need Advice: Issue with ChAMP Analysis - Meth and UnMeth Matrix Pairing Error
MethylationArray
methylationArrayAnalysis
ChAMP
updated 25 days ago by
James W. MacDonald
65k • written 26 days ago by
david.cheishvili
• 0
6 results • Page
1 of 1
Recent ...
Replies
Comment: DEG Filtering
by
Gordon Smyth
50k
RMA normalization is good but batch correction using NOISeq isn't right. Data shouldn't be batch corrected before the limma analysis and NO…
Answer: maftools: Error in validateMaf(maf = maf, isTCGA = isTCGA, rdup = removeDuplicat
by
snijesh
▴ 20
You can try: using `read.delim` or `fread`. ``` my_maf = data.table::fread("path/to/maf/sample.maf") my_maf = read.maf(maf = my_maf) …
Comment: DEG Filtering
by
Amit
• 0
Hi Gordon, Thank you for your response and advice. I want to analyze Dataset GSE18090 (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi) whic…
Comment: edgeR, 3 x 2 design with a batch effect and contrasts
by
Gordon Smyth
50k
Yes, that is a quote from [A guide to creating design matrices for gene expression experiments](https://bioconductor.org/packages/release/w…
Comment: edgeR, 3 x 2 design with a batch effect and contrasts
by
JKim
• 0
Thank you. I think I found why the order matters. > Although an intercept-free design matrix has been coded using the 0+ notation, the in…
Votes
Answer: edgeR, 3 x 2 design with a batch effect and contrasts
Answer: padj-based gradient scale from barplot (clusterProfiler results) does not work p
C: How to check that the reads in two fastq files are in the same order
Answer: Need help with creating and plotting temporal clustering analysis of DEGs
Answer: Problem converting msigdb Human symbols to Zebrafish in gmt format
Awards
• All
Scholar
to
Gordon Smyth
50k
Popular Question
to
rocanja
▴ 60
Popular Question
to
rproendo
▴ 20
Popular Question
to
Wolfgang RAFFELSBERGER
▴ 140
Popular Question
to
Dario Strbenac
★ 1.5k
Locations
• All
WEHI, Melbourne, Australia,
2 minutes ago
United States,
7 minutes ago
United States,
10 minutes ago
Switzerland,
13 minutes ago
Italy,
22 minutes ago
Traffic: 719 users visited in the last hour
Content
Search
Users
Tags
Badges
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