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methyAnalysis
•
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0
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replies
591
views
Diffrential Gene expression in a group of specific methylated prometor patience
GeneExpression
methyAnalysis
MethylationArray
3.3 years ago
coobzie
• 0
1
vote
2
replies
1.3k
views
Methylation data visualization using methyAnalysis with minfi
methylation
microarray
illumina
minfi
methyanalysis
updated 5.3 years ago by
Ou, Jianhong
★ 1.3k • written 5.3 years ago by
Adam_M
• 0
0
votes
0
replies
702
views
methyAnalysis - library(methyAnalysis) hangs when talking to Internet
methyanalysis
6.1 years ago
mcahn
• 0
2
votes
4
replies
2.6k
views
Problem in installing Bioconductor packages due to "IRanges"
lumi
methylumi
methyAnalysis
6.2 years ago
topijush
▴ 10
0
votes
0
replies
785
views
Recurring error in smoothMethygenoset step for MethyAnalysis
methyanalysis
6.3 years ago
charleneee95
• 0
1
vote
9
replies
3.5k
views
strange results from differential methylation analysis using limma
limma
methylation
methyanalysis
IMA
updated 22 months ago by
Sean Davis
21k • written 7.0 years ago by
RC
• 0
0
votes
0
replies
969
views
methyAnalysis: heatmapByChromosome not works
methyAnalysis
7.4 years ago
Shicheng Guo
• 0
0
votes
1
reply
894
views
problem with identifySigDMR command
methyAnalysis
7.7 years ago • updated 7.6 years ago
yuping.zhang
• 0
0
votes
0
replies
1.7k
views
methyAnalysis error with example data
methyanalysis
7.8 years ago
Tom
▴ 10
4
votes
10
replies
4.4k
views
Illumina MethylationEPIC vs. 450K
methylumi
minfi
illuminahumanmethylation450k.db
450k
methyanalysis
updated 8.1 years ago by
Peter Hickey
▴ 670 • written 8.1 years ago by
Ahdee
▴ 50
1
vote
13
replies
2.2k
views
MethylAid package visualize function not opening a web browser
illimina 450k methylation
methyanalysis
methylaid
8.4 years ago
jdangelo
• 0
0
votes
1
reply
4.0k
views
methyAnalysis M values and Beta Values
methyAnalysis
methyanalysis
450k
updated 9.0 years ago by
Pan Du
▴ 80 • written 9.0 years ago by
andrew.j.skelton73
▴ 370
1
vote
5
replies
1.3k
views
Understanding methyAnalysis Results
methyAnalysis
methyanalysis
methylation
illuminahumanmethylation450k.db
updated 9.0 years ago by
Pan Du
▴ 80 • written 9.0 years ago by
andrew.j.skelton73
▴ 370
0
votes
0
replies
1.7k
views
DMR identification: minfi speed, memory problems
Annotation
convert
minfi
methyAnalysis
bumphunter
Annotation
convert
minfi
methyAnalysis
10.1 years ago
Allegra Petti
▴ 120
0
votes
8
replies
2.2k
views
methyAnalysis for DMR identification
convert
methyAnalysis
convert
methyAnalysis
updated 10.1 years ago by
Giovanni Calice
▴ 160 • written 10.1 years ago by
Guest User
★ 13k
0
votes
6
replies
2.9k
views
DMR identification: minfi speed, memory problems
Annotation
convert
minfi
methyAnalysis
bumphunter
Annotation
convert
minfi
methyAnalysis
updated 10.1 years ago by
James W. MacDonald
65k • written 10.1 years ago by
Guest User
★ 13k
0
votes
0
replies
1.7k
views
Conversion of minfi format MethylSet to methyAnalysis format MethyGenoSet
Cancer
charm
minfi
methyAnalysis
Cancer
charm
minfi
methyAnalysis
11.1 years ago
Ed Schwalbe
▴ 20
0
votes
2
replies
1.2k
views
genoset:::initGenoSet
methyAnalysis
methyAnalysis
updated 11.1 years ago by
Pan Du
▴ 440 • written 11.1 years ago by
Schalkwyk, Leonard
▴ 20
0
votes
2
replies
1.7k
views
Loading Data into MethyAnalysis
Microarray
methyAnalysis
Microarray
methyAnalysis
updated 11.2 years ago by
Pan Du
▴ 440 • written 11.2 years ago by
Guest User
★ 13k
0
votes
1
reply
1.1k
views
methyAnalysis methyGenoSet function
methyAnalysis
methyAnalysis
updated 11.2 years ago by
Sean Davis
21k • written 11.2 years ago by
Giancarlo
▴ 10
0
votes
0
replies
1.1k
views
importing data problem with methyAnalysis package
Biophysics
Annotation
Preprocessing
annotate
lumi
methyAnalysis
Biophysics
Annotation
lumi
11.2 years ago
Pan Du
▴ 440
21 results • Page
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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: 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: edgeR, 3 x 2 design with a batch effect and contrasts
Answer: Need help with creating and plotting temporal clustering analysis of DEGs
Answer: Problem converting msigdb Human symbols to Zebrafish in gmt format
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