Showing : ChAMPdata • reset
2
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10
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4.1k
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Problem at champ.load
ChAMPdata ChAMP
updated 3 months ago by • 0 • written 2.2 years ago by • 0
0
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0
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394
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Errors trying to load EPIC v2 data in ChAMP
ChAMP ChAMPdata
7 months ago elgomez • 0
2
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7
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3.6k
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Annotation for EPICv2
EpicV2 ChAMPdata
updated 7 months ago by • 0 • written 8 months ago by • 0
2
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4
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1.4k
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Error EPICv2 ChAMP
ChAMPdata IlluminaHumanMethylationEPICv2anno.20a1.hg38 ChAMP
updated 14 months ago by 68k • written 14 months ago by • 0
0
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610
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how to solve this error?
ChAMPdata ChAMP
16 months ago Meghana • 0
0
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2
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1.8k
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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
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1
reply
1.2k
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Error in ChAMP GUI
ChAMP shiny ChAMPdata
updated 3.3 years ago by • 0 • written 3.3 years ago by • 0
0
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3
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1.4k
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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
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3
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1.8k
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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 4 months ago by • 0 • written 3.8 years ago by • 0
2
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1
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1.7k
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How to download the ChAMP dependency ChAMPdata
ChAMP ChAMPdata
updated 4.1 years ago by 4.1k • written 4.1 years ago by ▴ 10
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2
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1.2k
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Error myDMP not found
Illumina methylationArrayAnalysis ChAMPdata ChAMP
4.4 years ago sissialva21 • 0
11 results • Page 1 of 1
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Comment: Pre-filtering, adjusting independent filtering, or lfcthreshold() on DESeq2? Low by Alexander • 0
Dr. Love, Thank you for the support. Is there a hard-and-fast rule for choosing a threshold in bulk RNAseq analyses using lfcthreshold()? …
Answer: Pre-filtering, adjusting independent filtering, or lfcthreshold() on DESeq2? Low by Michael Love 43k
There are a couple posts on here that also mention this but maybe hard to find: lfcShrink is more aggressive at shrinking that the point nu…
Answer: Which GTF file to use for creation of tx2gene files? by Michael Love 43k
I use the top GTF and FASTA from GENCODE. I do not include haplotype chromosomes in the reference.
Answer: DESeq2 LRT: Testing Effects of Treatment1, Treatment2, and Their Interaction in by Michael Love 43k
The reduced model depends on what you want to subject to null hypothesis testing. One idea would be to have ChatGPT explain what each full …
Answer: 6 groups to compare DESeq2 (Wald vs LRT) by Michael Love 43k
> I get the same number of DEGs in each individual comparison this is a FAQ in the DESeq2 vignette
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Comment: Analysis of clusters of a heatmap with enrichGO of clusterProfiler: choice fo t
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)
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