Showing : ChAMP • reset
0
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40
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ChAMP.DMR error - Error in makeGenomicRatioSetFromMatrix
ChAMP
updated 1 day ago by 67k • written 2 days ago by • 0
0
votes
0
replies
135
views
Errors trying to load EPIC v2 data in ChAMP
ChAMP ChAMPdata
5 weeks ago elgomez • 0
1
vote
9
replies
3.0k
views
Error using champ.import
ChAMP EPICv2
updated 9 weeks ago by • 0 • written 17 months ago by • 0
1
vote
1
reply
403
views
Empty Results from champ.DMP Despite Expected Output
MethylationArray ChAMP R
updated 3 months ago by 67k • written 3 months ago by • 0
0
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4
replies
529
views
Failed to install geneLenDataBase
geneLenDataBase ChAMP
updated 4 months ago by 4.1k • written 4 months ago by • 0
3
votes
12
replies
3.8k
views
How to get DMR for Infinium methylation EPIC v2
ChAMP DMRcate minfi
updated 4 months ago by ▴ 200 • written 13 months ago by ▴ 10
0
votes
1
reply
491
views
ChAMP analysis Error: Meth Matrix and UnMeth Matrix seems not paried correctly AND incomplete final line
MethylationArray methylationArrayAnalysis ChAMP
updated 24 days ago by • 0 • written 5 months ago by • 0
0
votes
1
reply
360
views
single excel file containing methylation beta values does not get loaded in ChAMP
ChAMP
updated 5 months ago by ▴ 780 • written 5 months ago by • 0
0
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3
replies
1.2k
views
ChAMP not available for bioconductor 3.19
Bioconductor ChAMP
updated 6 months ago by 4.1k • written 6 months ago by • 0
2
votes
3
replies
726
views
Problem installing ChAMP on a MacBook
ChAMP
updated 7 months ago by 4.1k • written 7 months ago by • 0
0
votes
7
replies
1.2k
views
ChAMP installation issue
Cha ChAMP
updated 7 months ago by 67k • written 7 months ago by • 0
2
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4
replies
873
views
Error EPICv2 ChAMP
ChAMPdata IlluminaHumanMethylationEPICv2anno.20a1.hg38 ChAMP
updated 8 months ago by 67k • written 8 months ago by • 0
1
vote
2
replies
441
views
Error in champ.load(): The following specified files do not exist
ChAMP
8 months ago Sherin • 0
1
vote
1
reply
1.0k
views
Need Advice: Issue with ChAMP Analysis - Meth and UnMeth Matrix Pairing Error
MethylationArray methylationArrayAnalysis ChAMP
updated 10 months ago by 67k • written 10 months ago by • 0
0
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0
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450
views
how to solve this error?
ChAMPdata ChAMP
10 months ago Meghana • 0
0
votes
4
replies
2.2k
views
ChAMP - obtaining beta values using EPICv2 annotation
ChAMP EPICv2
updated 6 weeks ago by • 0 • written 11 months ago by • 0
0
votes
0
replies
436
views
champ.load() from .idat files of GDC/TCGA dataset
TCGAbiolinks ChAMP
10 months ago Thalita • 0
0
votes
7
replies
1.1k
views
Deleted:No significant MVPs with a BH adjusted P-value below 0.05
ChAMP
updated 12 months ago by ▴ 780 • written 12 months ago by • 0
2
votes
1
reply
1.0k
views
ChAMP can't be found in Bioc3.18?
ChAMP
13 months ago ramonfallon ▴ 20
0
votes
7
replies
2.3k
views
error with champ.load
ChAMP champ methylation
updated 16 months ago by • 0 • written 4.7 years ago by • 0
0
votes
3
replies
1.0k
views
ChAMP trouble reading csv file
ChAMP
written 17 months ago by • 0
1
vote
16
replies
4.5k
views
error in ChAMP loading file
ChAMP
updated 9 months ago by • 0 • written 2.1 years ago by • 0
3
votes
7
replies
6.3k
views
error with champ.load
champ
written 7.1 years ago by ▴ 10
0
votes
2
replies
1.6k
views
Trouble Loading Data into Champ
loaddata ChAMPdata champload R ChAMP
updated 19 months ago by • 0 • written 3.8 years ago by • 0
0
votes
3
replies
959
views
Error in champ.load() function
ChAMP
updated 19 months ago by 67k • written 19 months ago by • 0
0
votes
2
replies
1.2k
views
How to find probe enhancer annotation for Illumina EPIC array?
IlluminaHumanMethylationEPICmanifest ChAMP annotation
updated 19 months ago by 67k • written 19 months ago by • 0
0
votes
2
replies
1.4k
views
Error in loading file using champ.load() from ChAMP package
champ.load epicarray ChAMP methylationArrayAnalysis
20 months ago • updated 19 months ago arisarkar88 ▴ 40
2
votes
8
replies
3.2k
views
Problem at champ.load
ChAMPdata ChAMP
updated 6 weeks ago by • 0 • written 20 months ago by • 0
0
votes
1
reply
891
views
Unable to create pd file for ChAMP analysis
ChAMP
updated 5 months ago by • 0 • written 20 months ago by • 0
0
votes
0
replies
535
views
Cannot generate plots when calling ChAMP
ChAMP DMP.GUI
20 months ago Kan • 0
0
votes
2
replies
1.0k
views
error in champ.SVD
svd methylation champ
updated 20 months ago by 4.1k • written 20 months ago by • 0
0
votes
3
replies
1.6k
views
ChAMP filter bug when using beta matrix and pd as input
ChAMP
written 7.5 years ago by • 0
1
vote
1
reply
1.1k
views
champ.load IDAT files from subdirectories
ChAMP
updated 21 months ago by ▴ 780 • written 21 months ago by • 0
0
votes
1
reply
1.6k
views
Trying to generate a pd file for ChAMP from idat files with no array or slide information in file names
ChAMP
updated 2.0 years ago by 67k • written 2.0 years ago by ▴ 10
1
vote
1
reply
896
views
In readLines(csvfile)
pipeline testdata ChAMP
updated 2.0 years ago by 67k • written 2.0 years ago by • 0
0
votes
1
reply
778
views
Champ.impute - myLoad not found
ChAMP
updated 2.2 years ago by ▴ 780 • written 2.2 years ago by • 0
0
votes
3
replies
1.4k
views
methylated/unmethylated media threshold (EPIC assay)
IlluminaHumanMethylationEPICanno.ilm10b3.hg19 ChAMP minfi
2.7 years ago • updated 2.6 years ago ramonfallon ▴ 20
0
votes
1
reply
1.5k
views
champ.SVD() error, assumes standard class() function will return single string
ChAMP
updated 2.6 years ago by ▴ 780 • written 2.6 years ago by ▴ 20
0
votes
7
replies
3.2k
views
ERROR happens when install "DSS" package
methylationArrayAnalysis ChAMP DMP DSS
updated 2.2 years ago by 67k • written 2.6 years ago by • 0
0
votes
4
replies
1.7k
views
Problem installing ChAMP package.
ChAMP
2.7 years ago Yu-min • 0
0
votes
1
reply
1.2k
views
How to control for confounders in champ.DMP and champ.DMR?
ChAMP
updated 2.7 years ago by ▴ 780 • written 2.7 years ago by • 0
0
votes
1
reply
1.1k
views
Error in ChAMP GUI
ChAMP shiny ChAMPdata
updated 2.8 years ago by • 0 • written 2.8 years ago by • 0
1
vote
2
replies
3.2k
views
Error using ChAMP SVD analysis
ChAMP
updated 21 months ago by • 0 • written 3.4 years ago by • 0
0
votes
0
replies
1.1k
views
Error in champ.svd - function 'EstDimRMTv2' within champ.svd acting inconsistently?
minfiData ChAMP
3.0 years ago behr201 • 0
0
votes
3
replies
1.3k
views
Wrong terminology used on champ.load() output of ChAMP package?
ChAMPdata ChAMP
updated 3.0 years ago by ▴ 780 • written 3.0 years ago by • 0
0
votes
0
replies
1.1k
views
Problem loading Red channel idat files with champ.load
R MethylationArrayData ChAMP
3.1 years ago Paulina • 0
3
votes
4
replies
9.9k
views
Problem loading R packages on MacBook Pro
newpackage ChAMP
updated 2.3 years ago by • 0 • written 3.1 years ago by • 0
0
votes
2
replies
1.1k
views
problems opening ChAMP
ChAMP
updated 3.1 years ago by ▴ 780 • written 3.1 years ago by • 0
0
votes
1
reply
1.3k
views
error in champ.norm
champ.norm ChAMP
updated 3.2 years ago by ★ 4.0k • written 3.2 years ago by • 0
0
votes
0
replies
933
views
ChAMP.CNA analysis
CopyNumberPlots ChAMP CopyNumberVariation CopyNumberVariationData
3.3 years ago FWNL15 • 0
50 results • Page 1 of 1
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Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
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For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0
Thanks for your reply!
Votes
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
A: Using RSEM reads for DESeq2
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