Showing : champ • reset
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Why the order of sample names in the beta matrix affect the analysis results of Champ.DMP? What should I do?
ChAMP limma Bioconductor ChAMPdata
updated 11 months ago by • 0 • written 4.5 years ago by • 0
0
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5
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2.4k
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Loading ChAMP IdatFiles with two different ArrayTypes
ChAMP
updated 4.5 years ago by ▴ 290 • written 4.5 years ago by • 0
0
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6
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5.0k
views
Merge problems in R
methylationArrayAnalysis ChAMP MethylationArrayData
4.6 years ago FWNL15 • 0
1
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1
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2.2k
views
How to solve the error in running champ.DMP()
ChAMP
updated 4.7 years ago by ▴ 780 • written 4.7 years ago by ▴ 10
2
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1
reply
1.6k
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How to save results of each step from ChAMP pipeline?
Bioconductor ChAMP
updated 4.7 years ago by ▴ 290 • written 4.7 years ago by ▴ 10
2
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1
reply
1.9k
views
How to download the ChAMP dependency ChAMPdata
ChAMP ChAMPdata
updated 4.7 years ago by 4.3k • written 4.7 years ago by ▴ 10
0
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2
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2.0k
views
champ.SVD() : Error in while (step == 0) { : missing value where TRUE/FALSE needed
methylationArrayAnalysis EPICarray ChAMP Champ.SVD
4.8 years ago arisarkar88 ▴ 40
0
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2
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1.4k
views
Error myDMP not found
Illumina methylationArrayAnalysis ChAMPdata ChAMP
5.0 years ago sissialva21 • 0
0
votes
12
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8.4k
views
ChAMP input: Beta Matrix?
champ dmr analysis
updated 19 months ago by • 0 • written 9.9 years ago by • 0
0
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0
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814
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ChAMP batch effect
ChAMP
5.1 years ago SMA180043 • 0
1
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2
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1.6k
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what is "sample_well" and "pool_ID" in ChAMP
ChAMP
5.1 years ago Hongbii • 0
2
votes
7
replies
4.2k
views
Blood cell composition adjustment in methylation EPIC array: ChAMP
MethylationArray methylationArrayAnalysis ChAMP
updated 2.3 years ago by • 0 • written 5.2 years ago by ▴ 20
3
votes
5
replies
3.5k
views
Why the LogFC and delta-beta value are different in ChAMP
DNAMethylation ChAMP
updated 23 months ago by • 0 • written 5.2 years ago by • 0
1
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1
reply
1.3k
views
champ.DMP finds different probes in A-vs-B and B-vs-A analysis
DifferentialMethylation ChAMP champ.DMP
updated 5.2 years ago by ▴ 290 • written 5.2 years ago by • 0
1
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3
replies
4.4k
views
normalization combination of noob + BMIQ/Quantile
minfi bmiq noob preprocessQuantile champ
updated 5.4 years ago by 68k • written 5.4 years ago by ▴ 50
0
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1
reply
1.3k
views
the function DMR in ChAMP package
ChAMP DMR
updated 5.7 years ago by ▴ 290 • written 5.7 years ago by • 0
0
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1
reply
1.1k
views
rebuild the ChAMP package
ChAMP
updated 5.8 years ago by 25k • written 5.8 years ago by • 0
0
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0
replies
758
views
ChAMP DMP col abbreviations stend for what?
ChAMP
5.8 years ago julie • 0
0
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1
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1.1k
views
about the ChAMP package, the champ.norm output different results,when run it twice on epic data.
ChAMP
updated 5.9 years ago by ▴ 290 • written 5.9 years ago by • 0
1
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3
replies
2.2k
views
Skewed beta-distribution from Methylation EPIC array data
ChAMP EPIC Illumina Methylation
6.0 years ago erwin.tomasich ▴ 10
1
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1
reply
1.3k
views
Issue with ChAMP DMP.GUI
ChAMP champ methylation EPIC
updated 6.0 years ago by ▴ 90 • written 6.1 years ago by • 0
2
votes
16
replies
4.8k
views
Methylation EPIC array: ChAMP package-champ.load added probes?
methylation epic champ champ.load() Methylation array
updated 6.1 years ago by ▴ 290 • written 6.1 years ago by ▴ 20
1
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2
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1.6k
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ChAMP not handling 3+ levels in contrasts
champ
updated 6.4 years ago by ▴ 290 • written 6.4 years ago by • 0
0
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2
replies
1.9k
views
cpg.annotate model requirements
DMRcate ChAMP
updated 6.5 years ago by ▴ 290 • written 6.5 years ago by • 0
0
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1
reply
3.1k
views
Differential Methylation Analysis using ChAMP
ChAMP
updated 4 months ago by 43k • written 6.6 years ago by • 0
2
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4
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2.1k
views
bumphunter stalls on "Smoothing coefficients"
bumphunter ChAMP
updated 6.7 years ago by ▴ 290 • written 6.7 years ago by ▴ 10
0
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2
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2.9k
views
ChAMP::champ.norm Error in champ.BMIQ(beta[, x], design.v, sampleID = colnames(beta)[x], : task 1 failed - "only defined on a data frame with all…
ChAMP methylation BMIQ
updated 2.2 years ago by • 0 • written 6.8 years ago by ▴ 20
2
votes
5
replies
2.6k
views
Error in Champ for Bioconductor performing GSEA analysis on Methlayion array data
champ bioconductor methyaltion epic array
updated 7.0 years ago by • 0 • written 7.1 years ago by • 0
1
vote
8
replies
3.9k
views
Error in Champ for Bioconductor analyzing Methlayion array data
champ bioconductor contrastmatrix compare.group
updated 7.1 years ago by ▴ 290 • written 7.1 years ago by • 0
1
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5
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3.0k
views
error while using champ.svd() function
champ
7.1 years ago sinha.puja ▴ 10
0
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3
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2.2k
views
ChAMP Methylation analysis error code "could not find function champ.load"
champ
7.1 years ago sinha.puja ▴ 10
2
votes
1
reply
1.9k
views
EPIC methylation array - analysis with ChAMP - how to export bed/wig file to view in UCSC/IGV?
methylation epic champ
updated 7.2 years ago by ▴ 290 • written 7.2 years ago by ▴ 10
0
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2
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1.5k
views
How can I define which samples are controls and which samples are cases in ChAMP
ChAMP champ.DMP Cases Controls references
7.3 years ago yuabrahamliu • 0
0
votes
2
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2.3k
views
Use ChAMP to Find Differential Methylation Regions (DMR)
ChAMP DMR champ.DMR
7.3 years ago yuabrahamliu • 0
0
votes
2
replies
2.7k
views
Some terms in EPIC Methylation Analysis
ChAMP SVD Array Slide Sample Plate
updated 7.3 years ago by ▴ 290 • written 7.3 years ago by • 0
0
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2
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3.0k
views
ChAMP Normalization on EPIC Methylation Data
ChAMP Normalization FunctionalNormalization methylation EPIC
7.3 years ago yuabrahamliu • 0
0
votes
4
replies
1.8k
views
Taking relatedness among individuals into account in differential methylation analysis?
methylation minfi ChAMP
updated 7.4 years ago by ★ 6.5k • written 7.5 years ago by • 0
0
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5
replies
3.1k
views
DNA methylation analysis without raw data IDAT files
r illimina 450k methylation minfi champ tcga
updated 7.5 years ago by ▴ 290 • written 7.5 years ago by ▴ 60
1
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2
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2.0k
views
Problem installing ChAMP package.
software error microarray champ methylation
updated 7.5 years ago by 25k • written 7.5 years ago by ▴ 10
3
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9
replies
4.9k
views
champ.runCombat is failing: "invalid 'row.names' length"
champ
7.5 years ago Gurkenkönig ▴ 10
0
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1
reply
1.3k
views
Help with Errors in DMRcate ChAMP package
champ
7.5 years ago urvi • 0
0
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0
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845
views
ChAMP results interpretation
champ
7.6 years ago Giovanni Calice ▴ 160
0
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1
reply
2.2k
views
install ChAMP under Ubuntu 18.04 in R 3.4.4 with error "maximal number of DLLs reached..."
ChAMP software error installation
7.6 years ago chxp • 0
0
votes
3
replies
2.1k
views
QC and normalization of 450K data from CSVs instead of IDATs
450K CSV normalization minfi ChAMP
updated 7.7 years ago by ▴ 290 • written 7.7 years ago by ▴ 190
0
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3
replies
1.7k
views
Error when running ChAMP package
champ
7.7 years ago hazel.rogers • 0
0
votes
1
reply
1.8k
views
ChAMP functional normalization error "subscript out of bounds"
champ epic microarray normalization minfi
7.7 years ago Laura • 0
1
vote
3
replies
1.9k
views
Error biocLite() newest version of ChAMP
R bioclite champ
7.8 years ago rosa_hegi ▴ 10
1
vote
2
replies
3.6k
views
Beta-matrix - Differential methylation analysis
ChAMP tutorial
7.8 years ago Dave Emir • 0
0
votes
1
reply
1.2k
views
ChAMP error while lazyloading the latest version ChAMP_2.9.10
ChAMP
updated 7.8 years ago by ▴ 290 • written 7.8 years ago by ▴ 30
2
votes
3
replies
3.4k
views
"Seems your IDAT file not from one Array"
EPIC methylation ChAMP
updated 7.8 years ago by ▴ 30 • written 7.8 years ago by • 0
156 results • Page 2 of 4
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Comment: Error message that there is no package called Biobase by DamionLedner99 • 0
thanks for sharing!!! https://cran.r-project.org/
Comment: msmsTests, inconsistent sign between lFC.Av and LogFC by Ben • 0
Continued here due to posting difficulties: Extract from the results table: ``` Inhibitor Vehicle lFC.Av LogFC ... F1 0.0 27…
Answer: DESeq2 for 16S rRNA Analysis by James W. MacDonald 68k
The Wald test is only meant for comparison of two groups at a time, so it depends on what you mean by 'analyze across multiple groups at a …
Comment: MetaDE.pvalue: Error in xj[i]: invalid subscript type 'list' by varying.mastodon.isyn • 0
Oh, that error! I remember wrestling with that one for hours when I was first learning Python. Turns out I was trying to use a list itself …
Comment: Confirm that OpenStats will not be archived (pryr dependency) by Marina • 0
Thank you!
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Answer: What happens to genes with low dispersion during dispersion shrinkage in DESeq2
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