Showing : ChAMP • reset
1
vote
22
replies
6.6k
views
error in ChAMP loading file
ChAMP
written 2.6 years ago by • 0
0
votes
8
replies
1.5k
views
Deleted:No significant MVPs with a BH adjusted P-value below 0.05
ChAMP
written 18 months ago by • 0
2
votes
10
replies
4.1k
views
Problem at champ.load
ChAMPdata ChAMP
updated 3 months ago by • 0 • written 2.2 years ago by • 0
0
votes
1
reply
514
views
ChAMP.DMR error - Error in makeGenomicRatioSetFromMatrix
ChAMP
updated 5 months ago by • 0 • written 6 months ago by • 0
0
votes
0
replies
391
views
Errors trying to load EPIC v2 data in ChAMP
ChAMP ChAMPdata
7 months ago elgomez • 0
1
vote
9
replies
3.5k
views
Error using champ.import
ChAMP EPICv2
updated 8 months ago by • 0 • written 23 months ago by • 0
1
vote
1
reply
692
views
Empty Results from champ.DMP Despite Expected Output
MethylationArray ChAMP R
updated 9 months ago by 68k • written 9 months ago by • 0
0
votes
4
replies
741
views
Failed to install geneLenDataBase
geneLenDataBase ChAMP
updated 10 months ago by 4.1k • written 10 months ago by • 0
4
votes
12
replies
5.2k
views
How to get DMR for Infinium methylation EPIC v2
ChAMP DMRcate minfi
updated 10 months ago by ▴ 230 • written 19 months ago by ▴ 20
0
votes
1
reply
777
views
ChAMP analysis Error: Meth Matrix and UnMeth Matrix seems not paried correctly AND incomplete final line
MethylationArray methylationArrayAnalysis ChAMP
updated 6 months ago by • 0 • written 11 months ago by • 0
0
votes
1
reply
531
views
single excel file containing methylation beta values does not get loaded in ChAMP
ChAMP
updated 11 months ago by ▴ 780 • written 11 months ago by • 0
0
votes
3
replies
1.7k
views
ChAMP not available for bioconductor 3.19
Bioconductor ChAMP
updated 12 months ago by 4.1k • written 12 months ago by • 0
2
votes
3
replies
977
views
Problem installing ChAMP on a MacBook
ChAMP
updated 13 months ago by 4.1k • written 13 months ago by • 0
0
votes
7
replies
1.7k
views
ChAMP installation issue
Cha ChAMP
updated 13 months ago by 68k • written 13 months ago by • 0
2
votes
4
replies
1.4k
views
Error EPICv2 ChAMP
ChAMPdata IlluminaHumanMethylationEPICv2anno.20a1.hg38 ChAMP
updated 14 months ago by 68k • written 14 months ago by • 0
1
vote
2
replies
598
views
Error in champ.load(): The following specified files do not exist
ChAMP
14 months ago Sherin • 0
1
vote
1
reply
1.5k
views
Need Advice: Issue with ChAMP Analysis - Meth and UnMeth Matrix Pairing Error
MethylationArray methylationArrayAnalysis ChAMP
updated 16 months ago by 68k • written 16 months ago by • 0
0
votes
0
replies
605
views
how to solve this error?
ChAMPdata ChAMP
16 months ago Meghana • 0
0
votes
4
replies
3.2k
views
ChAMP - obtaining beta values using EPICv2 annotation
ChAMP EPICv2
updated 7 months ago by • 0 • written 17 months ago by • 0
0
votes
0
replies
566
views
champ.load() from .idat files of GDC/TCGA dataset
TCGAbiolinks ChAMP
16 months ago Thalita • 0
2
votes
1
reply
1.2k
views
ChAMP can't be found in Bioc3.18?
ChAMP
19 months ago ramonfallon ▴ 20
0
votes
7
replies
2.6k
views
error with champ.load
ChAMP champ methylation
updated 22 months ago by • 0 • written 5.2 years ago by • 0
0
votes
3
replies
1.2k
views
ChAMP trouble reading csv file
ChAMP
written 23 months ago by • 0
3
votes
7
replies
6.8k
views
error with champ.load
champ
written 7.6 years ago by ▴ 10
0
votes
2
replies
1.8k
views
Trouble Loading Data into Champ
loaddata ChAMPdata champload R ChAMP
updated 2.1 years ago by • 0 • written 4.3 years ago by • 0
0
votes
3
replies
1.1k
views
Error in champ.load() function
ChAMP
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
0
votes
2
replies
1.5k
views
How to find probe enhancer annotation for Illumina EPIC array?
IlluminaHumanMethylationEPICmanifest ChAMP annotation
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
0
votes
2
replies
1.6k
views
Error in loading file using champ.load() from ChAMP package
champ.load epicarray ChAMP methylationArrayAnalysis
2.2 years ago • updated 2.1 years ago arisarkar88 ▴ 40
0
votes
1
reply
1.0k
views
Unable to create pd file for ChAMP analysis
ChAMP
updated 11 months ago by • 0 • written 2.2 years ago by • 0
0
votes
0
replies
621
views
Cannot generate plots when calling ChAMP
ChAMP DMP.GUI
2.2 years ago Kan • 0
0
votes
2
replies
1.2k
views
error in champ.SVD
svd methylation champ
updated 2.2 years ago by 4.1k • written 2.2 years ago by • 0
0
votes
3
replies
1.8k
views
ChAMP filter bug when using beta matrix and pd as input
ChAMP
written 8.0 years ago by • 0
1
vote
1
reply
1.4k
views
champ.load IDAT files from subdirectories
ChAMP
updated 2.3 years ago by ▴ 780 • written 2.3 years ago by • 0
0
votes
1
reply
1.9k
views
Trying to generate a pd file for ChAMP from idat files with no array or slide information in file names
ChAMP
updated 2.5 years ago by 68k • written 2.5 years ago by ▴ 10
1
vote
1
reply
1.0k
views
In readLines(csvfile)
pipeline testdata ChAMP
updated 2.5 years ago by 68k • written 2.5 years ago by • 0
0
votes
1
reply
934
views
Champ.impute - myLoad not found
ChAMP
updated 2.7 years ago by ▴ 780 • written 2.7 years ago by • 0
0
votes
3
replies
1.6k
views
methylated/unmethylated media threshold (EPIC assay)
IlluminaHumanMethylationEPICanno.ilm10b3.hg19 ChAMP minfi
3.2 years ago • updated 3.1 years ago ramonfallon ▴ 20
0
votes
1
reply
1.7k
views
champ.SVD() error, assumes standard class() function will return single string
ChAMP
updated 3.1 years ago by ▴ 780 • written 3.1 years ago by ▴ 20
0
votes
7
replies
3.6k
views
ERROR happens when install "DSS" package
methylationArrayAnalysis ChAMP DMP DSS
updated 2.6 years ago by 68k • written 3.1 years ago by • 0
0
votes
4
replies
1.9k
views
Problem installing ChAMP package.
ChAMP
3.2 years ago Yu-min • 0
0
votes
1
reply
1.4k
views
How to control for confounders in champ.DMP and champ.DMR?
ChAMP
updated 3.2 years ago by ▴ 780 • written 3.2 years ago by • 0
0
votes
1
reply
1.2k
views
Error in ChAMP GUI
ChAMP shiny ChAMPdata
updated 3.3 years ago by • 0 • written 3.3 years ago by • 0
1
vote
2
replies
3.6k
views
Error using ChAMP SVD analysis
ChAMP
updated 2.3 years ago by • 0 • written 3.9 years ago by • 0
0
votes
0
replies
1.2k
views
Error in champ.svd - function 'EstDimRMTv2' within champ.svd acting inconsistently?
minfiData ChAMP
3.4 years ago behr201 • 0
0
votes
3
replies
1.4k
views
Wrong terminology used on champ.load() output of ChAMP package?
ChAMPdata ChAMP
updated 3.5 years ago by ▴ 780 • written 3.5 years ago by • 0
0
votes
0
replies
1.2k
views
Problem loading Red channel idat files with champ.load
R MethylationArrayData ChAMP
3.6 years ago Paulina • 0
3
votes
4
replies
11k
views
Problem loading R packages on MacBook Pro
newpackage ChAMP
updated 2.7 years ago by • 0 • written 3.6 years ago by • 0
0
votes
2
replies
1.2k
views
problems opening ChAMP
ChAMP
updated 3.6 years ago by ▴ 780 • written 3.6 years ago by • 0
0
votes
1
reply
1.5k
views
error in champ.norm
champ.norm ChAMP
updated 3.7 years ago by ★ 4.0k • written 3.7 years ago by • 0
0
votes
0
replies
1.1k
views
ChAMP.CNA analysis
CopyNumberPlots ChAMP CopyNumberVariation CopyNumberVariationData
3.8 years ago FWNL15 • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: 6 groups to compare DESeq2 (Wald vs LRT) by Rocio • 0
I used ``` dds <- DESeq(dds) resultsNames(dds) [1] "Intercept" "group_treatment1_vs_longer_disease" [3] "group_healthy_vs…
Comment: How to use goana function with zebrafish genome from org.Dr.eg.db by Eric • 0
Thank you, that fixed the issue. I must have missed that when going back and debugging.
Comment: Is voomByGroup available in limma? by richardallenfriedmanbrooklyn ▴ 30
Gordon, Thanks as always. Rich
Answer: Is voomByGroup available in limma? by Gordon Smyth 52k
voomByGroup is available from https://github.com/YOU-k/voomByGroup
Answer: How to use goana function with zebrafish genome from org.Dr.eg.db by Gordon Smyth 52k
The problem isn't with goana() but with how you have computed gene counts in the first place. When you assign aligned reads to genes, the c…
Votes
Answer: Is voomByGroup available in limma?
Answer: limma duplicateCorrelation appropriate where some blocks cross condition and som
Comment: Ensembl 114 / Ensembl Genomes 61 has been released!
Answer: DESeq2 empirical bayes: variance of the prior for log fold changes (LFC)
Answer: DESeq2 empirical bayes: variance of the prior for log fold changes (LFC)
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