Showing : wateRmelon • reset
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A survey of computational setups for Illumina Infinium DNA methylation EPIC array pipeline
DNAMethylation wateRmelon Computation minfi
2.2 years ago calen.p.ryan • 0
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7
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1.2k
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Getting wrong rownames of MSet object when using pfilter from watermelon
wateRmelon Illumina EPIC pfilter
updated 5.0 years ago by • 0 • written 5.0 years ago by • 0
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3
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1.8k
views
Combining pfilter (wateRmelon) and preprocessNoob (minfi)
wateRmelon minfi methylation pfilter preprocessNoob
updated 5.2 years ago by ▴ 10 • written 5.2 years ago by • 0
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0
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1.3k
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Error in ENmix::bmiq.mc(): BMIQ estimates encountered error, try to run it again
methylation ENmix BMIQ wateRmelon
5.7 years ago moldach ▴ 20
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1
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1.6k
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MethylSet to MethyLumiSet
minfi methylumi watermelon
7.8 years ago Tom ▴ 10
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5
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2.5k
views
Different errors when attempting to normalize using wateRmelon (v1.1.18)
wateRmelon methylation EPIC normalization
7.8 years ago Wade Davis ▴ 60
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2
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1.6k
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Error while using BMIQ normalisation on a methylumiSet
limma watermelon methylumi bmiq
updated 7.9 years ago by ▴ 10 • written 7.9 years ago by ▴ 10
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2
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2.0k
views
QC/normalization standards for cancer studies with 450k array data
minfi watermelon cancer 450k normalization
updated 9.3 years ago by ★ 6.5k • written 9.3 years ago by ▴ 10
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3
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2.3k
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minfi getProbeInfo error ( was WateRmelon betaqn error)
watermelon betaqn pfilter getProbeInfo minfi
9.7 years ago gctromp ▴ 10
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10
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2.5k
views
MethyLumiM to MethyLumiSet?
convert lumi methylumi minfi wateRmelon convert lumi methylumi minfi wateRmelon
updated 11.0 years ago by ★ 4.2k • written 11.0 years ago by ▴ 190
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Answer: Differential Expression Analysis with unbalanced batches without replication bet by Gordon Smyth 51k
> Is there an alternative model or approach in tools like edgeR, limma-voom, or DESeq2 or any other that can handle confounded batch effect…
Comment: BiomaRt Possible Ensembl SSL connectivity problems detected. by Adam • 0
I just found this workaround: httr::set_config(config(ssl_verifypeer = FALSE, ssl_verifyhost = FALSE)) at [this Stack Overflow link][…
Comment: Problem at champ.load by icecreamlover • 0
Hello! Were you able to figure this out? I am running into the same error!
Comment: ChAMP - obtaining beta values using EPICv2 annotation by icecreamlover • 0
Hello, Were you able to fix the error? I used the same document and I am running into the same error. I am curious if you have any feedba…
Comment: BiomaRt Possible Ensembl SSL connectivity problems detected. by Adam • 0
Can this please be revisited and corrected ASAP? I'm encountering the same issue, using a slightly more modern version of R (4.1.0). It s…
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A: Up/Down Regulated GeneList from edgeR and R
A: Up/Down Regulated GeneList from edgeR and R
A: Down/Up-regulated genes asymmetry in edgeR differential expression analysis
Answer: Combining RNAseq and microarray data using edgeR/limma-voom
Answer: How do I merge a list of GRanges?
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