Showing : CHAMP • reset
0
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3
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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 8 months ago by • 0 • written 4.2 years ago by • 0
0
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5
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2.2k
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Loading ChAMP IdatFiles with two different ArrayTypes
ChAMP
updated 4.2 years ago by ▴ 290 • written 4.3 years ago by • 0
0
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6
replies
4.8k
views
Merge problems in R
methylationArrayAnalysis ChAMP MethylationArrayData
4.3 years ago FWNL15 • 0
1
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1
reply
2.1k
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How to solve the error in running champ.DMP()
ChAMP
updated 4.4 years ago by ▴ 780 • written 4.4 years ago by ▴ 10
2
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1
reply
1.5k
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How to save results of each step from ChAMP pipeline?
Bioconductor ChAMP
updated 4.5 years ago by ▴ 290 • written 4.5 years ago by ▴ 10
2
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1
reply
1.8k
views
How to download the ChAMP dependency ChAMPdata
ChAMP ChAMPdata
updated 4.5 years ago by 4.2k • written 4.5 years ago by ▴ 10
0
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2
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1.8k
views
champ.SVD() : Error in while (step == 0) { : missing value where TRUE/FALSE needed
methylationArrayAnalysis EPICarray ChAMP Champ.SVD
4.6 years ago arisarkar88 ▴ 40
0
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2
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1.3k
views
Error myDMP not found
Illumina methylationArrayAnalysis ChAMPdata ChAMP
4.7 years ago sissialva21 • 0
0
votes
12
replies
8.1k
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ChAMP input: Beta Matrix?
champ dmr analysis
updated 16 months ago by • 0 • written 9.7 years ago by • 0
0
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0
replies
777
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ChAMP batch effect
ChAMP
4.9 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
4.9 years ago Hongbii • 0
2
votes
7
replies
3.7k
views
Blood cell composition adjustment in methylation EPIC array: ChAMP
MethylationArray methylationArrayAnalysis ChAMP
updated 2.0 years ago by • 0 • written 4.9 years ago by ▴ 20
3
votes
5
replies
3.4k
views
Why the LogFC and delta-beta value are different in ChAMP
DNAMethylation ChAMP
updated 20 months ago by • 0 • written 4.9 years ago by • 0
1
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1
reply
1.2k
views
champ.DMP finds different probes in A-vs-B and B-vs-A analysis
DifferentialMethylation ChAMP champ.DMP
updated 4.9 years ago by ▴ 290 • written 4.9 years ago by • 0
1
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3
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4.0k
views
normalization combination of noob + BMIQ/Quantile
minfi bmiq noob preprocessQuantile champ
updated 5.1 years ago by 68k • written 5.1 years ago by ▴ 50
0
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1
reply
1.2k
views
the function DMR in ChAMP package
ChAMP DMR
updated 5.4 years ago by ▴ 290 • written 5.4 years ago by • 0
0
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1
reply
1.0k
views
rebuild the ChAMP package
ChAMP
updated 5.6 years ago by 25k • written 5.6 years ago by • 0
0
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0
replies
727
views
ChAMP DMP col abbreviations stend for what?
ChAMP
5.6 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 5.7 years ago by ▴ 290 • written 5.7 years ago by • 0
1
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3
replies
2.0k
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Skewed beta-distribution from Methylation EPIC array data
ChAMP EPIC Illumina Methylation
5.8 years ago erwin.tomasich ▴ 10
1
vote
1
reply
1.2k
views
Issue with ChAMP DMP.GUI
ChAMP champ methylation EPIC
updated 5.8 years ago by ▴ 90 • written 5.8 years ago by • 0
2
votes
16
replies
4.2k
views
Methylation EPIC array: ChAMP package-champ.load added probes?
methylation epic champ champ.load() Methylation array
updated 5.8 years ago by ▴ 290 • written 5.8 years ago by ▴ 20
1
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2
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1.5k
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ChAMP not handling 3+ levels in contrasts
champ
updated 6.1 years ago by ▴ 290 • written 6.1 years ago by • 0
0
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2
replies
1.8k
views
cpg.annotate model requirements
DMRcate ChAMP
updated 6.3 years ago by ▴ 290 • written 6.3 years ago by • 0
0
votes
1
reply
3.0k
views
Differential Methylation Analysis using ChAMP
ChAMP
updated 6 weeks ago by 43k • written 6.4 years ago by • 0
2
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4
replies
2.0k
views
bumphunter stalls on "Smoothing coefficients"
bumphunter ChAMP
updated 6.4 years ago by ▴ 290 • written 6.4 years ago by ▴ 10
0
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2
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2.8k
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 24 months ago by • 0 • written 6.5 years ago by ▴ 20
2
votes
5
replies
2.4k
views
Error in Champ for Bioconductor performing GSEA analysis on Methlayion array data
champ bioconductor methyaltion epic array
updated 6.8 years ago by • 0 • written 6.8 years ago by • 0
1
vote
8
replies
3.7k
views
Error in Champ for Bioconductor analyzing Methlayion array data
champ bioconductor contrastmatrix compare.group
updated 6.8 years ago by ▴ 290 • written 6.8 years ago by • 0
1
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5
replies
2.9k
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error while using champ.svd() function
champ
6.9 years ago sinha.puja ▴ 10
0
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3
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2.1k
views
ChAMP Methylation analysis error code "could not find function champ.load"
champ
6.9 years ago sinha.puja ▴ 10
2
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1
reply
1.8k
views
EPIC methylation array - analysis with ChAMP - how to export bed/wig file to view in UCSC/IGV?
methylation epic champ
updated 6.9 years ago by ▴ 290 • written 6.9 years ago by ▴ 10
0
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2
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1.4k
views
How can I define which samples are controls and which samples are cases in ChAMP
ChAMP champ.DMP Cases Controls references
7.0 years ago yuabrahamliu • 0
0
votes
2
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2.2k
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Use ChAMP to Find Differential Methylation Regions (DMR)
ChAMP DMR champ.DMR
7.1 years ago yuabrahamliu • 0
0
votes
2
replies
2.5k
views
Some terms in EPIC Methylation Analysis
ChAMP SVD Array Slide Sample Plate
updated 7.1 years ago by ▴ 290 • written 7.1 years ago by • 0
0
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2
replies
2.8k
views
ChAMP Normalization on EPIC Methylation Data
ChAMP Normalization FunctionalNormalization methylation EPIC
7.1 years ago yuabrahamliu • 0
0
votes
4
replies
1.7k
views
Taking relatedness among individuals into account in differential methylation analysis?
methylation minfi ChAMP
updated 7.2 years ago by ★ 6.5k • written 7.2 years ago by • 0
0
votes
5
replies
3.0k
views
DNA methylation analysis without raw data IDAT files
r illimina 450k methylation minfi champ tcga
updated 7.2 years ago by ▴ 290 • written 7.2 years ago by ▴ 60
1
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2
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1.9k
views
Problem installing ChAMP package.
software error microarray champ methylation
updated 7.2 years ago by 25k • written 7.2 years ago by ▴ 10
3
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9
replies
4.6k
views
champ.runCombat is failing: "invalid 'row.names' length"
champ
7.2 years ago Gurkenkönig ▴ 10
0
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1
reply
1.2k
views
Help with Errors in DMRcate ChAMP package
champ
7.2 years ago urvi • 0
0
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0
replies
797
views
ChAMP results interpretation
champ
7.4 years ago Giovanni Calice ▴ 160
0
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1
reply
2.1k
views
install ChAMP under Ubuntu 18.04 in R 3.4.4 with error "maximal number of DLLs reached..."
ChAMP software error installation
7.4 years ago chxp • 0
0
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3
replies
2.0k
views
QC and normalization of 450K data from CSVs instead of IDATs
450K CSV normalization minfi ChAMP
updated 7.4 years ago by ▴ 290 • written 7.4 years ago by ▴ 190
0
votes
3
replies
1.6k
views
Error when running ChAMP package
champ
7.4 years ago hazel.rogers • 0
0
votes
1
reply
1.7k
views
ChAMP functional normalization error "subscript out of bounds"
champ epic microarray normalization minfi
7.5 years ago Laura • 0
1
vote
3
replies
1.9k
views
Error biocLite() newest version of ChAMP
R bioclite champ
7.6 years ago rosa_hegi ▴ 10
1
vote
2
replies
3.3k
views
Beta-matrix - Differential methylation analysis
ChAMP tutorial
7.6 years ago Dave Emir • 0
0
votes
1
reply
1.1k
views
ChAMP error while lazyloading the latest version ChAMP_2.9.10
ChAMP
updated 7.6 years ago by ▴ 290 • written 7.6 years ago by ▴ 30
2
votes
3
replies
3.2k
views
"Seems your IDAT file not from one Array"
EPIC methylation ChAMP
updated 7.6 years ago by ▴ 30 • written 7.6 years ago by • 0
156 results • Page 2 of 4
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Comment: gene Set with high AUC score but no cells assigned to cell type by tomssamylidsdkefood • 0
When using AUCell, a high activity score for your cDC2 gene set means that many genes from the set are expressed, similar to how Milwin gam…
Answer: Important: Bioconductor Release 3.22 Delayed by shepherl 4.2k
We will continue with the release on Thursday October 30th. We have shifted one day as originally planned. Thank you
Comment: bake() and cool() resulting in an empty table by Francesc • 0
Hi Catherine, thanks so much for using dar and for reporting this bug! We have identified the issue and pushed a fix to the dar repo (PR #…
Comment: Using DESeq2 for age prediction by ATpoint ★ 5.0k
You sure will find online tutorials on regression models / machine learning classifiers. The support site is for help with Bioconductor. Ch…
Comment: Using DESeq2 for age prediction by picasa1983 • 0
Thanks ! Do you have any idea how to do that ?
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Answer: Should voomWithQualityWeights still be used when the sample-specific weights var
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DESeq2 for candidate gene analysis
Answer: DESeq2 for candidate gene analysis
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