Showing : watermelon • reset
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A survey of computational setups for Illumina Infinium DNA methylation EPIC array pipeline
DNAMethylation wateRmelon Computation minfi
2.7 years ago calen.p.ryan • 0
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Getting wrong rownames of MSet object when using pfilter from watermelon
wateRmelon Illumina EPIC pfilter
updated 5.4 years ago by • 0 • written 5.4 years ago by • 0
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Combining pfilter (wateRmelon) and preprocessNoob (minfi)
wateRmelon minfi methylation pfilter preprocessNoob
updated 5.7 years ago by ▴ 10 • written 5.7 years ago by • 0
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Error in ENmix::bmiq.mc(): BMIQ estimates encountered error, try to run it again
methylation ENmix BMIQ wateRmelon
6.2 years ago moldach ▴ 20
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MethylSet to MethyLumiSet
minfi methylumi watermelon
8.2 years ago Tom ▴ 10
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Different errors when attempting to normalize using wateRmelon (v1.1.18)
wateRmelon methylation EPIC normalization
8.3 years ago Wade Davis ▴ 60
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Error while using BMIQ normalisation on a methylumiSet
limma watermelon methylumi bmiq
updated 8.4 years ago by ▴ 10 • written 8.4 years ago by ▴ 10
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QC/normalization standards for cancer studies with 450k array data
minfi watermelon cancer 450k normalization
updated 9.8 years ago by ★ 6.5k • written 9.8 years ago by ▴ 10
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minfi getProbeInfo error ( was WateRmelon betaqn error)
watermelon betaqn pfilter getProbeInfo minfi
10.2 years ago gctromp ▴ 10
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MethyLumiM to MethyLumiSet?
convert lumi methylumi minfi wateRmelon convert lumi methylumi minfi wateRmelon
updated 11.5 years ago by ★ 4.2k • written 11.5 years ago by ▴ 190
10 results • Page 1 of 1
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Comment: GSEA preranked analysis downstream of DEseq2 by Ajay • 0
`logFC * -log10(pval)` seems to be the pi-score proposed in this [paper][1] [1]: https://pmc.ncbi.nlm.nih.gov/articles/PMC3957066/
Comment: error in ChAMP loading file by janwilseo • 0
Any update on this post? I also had an issue with this. [erosion control](https://charlestonhydroseeding.com/)
Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k
Two things. First, the order of your term2gene is backwards (should be term and then gene, like the name), and by default `enricher` adjust…
Comment: Controlling for batch and estrus cycle using DESeq2 in RNA-seq analysis by donnycrimson • 0
One potential workaround might be to adjust for these factors using a combination of design matrices perhaps including batch as a covariate…
Comment: DESeq2 Design controlling for gender by donnycrimson • 0
On a lighter note, while you are tackling such complex data, you might enjoy a quick break playing the [Slope Game](https://slopegame.lol)…
Votes
DiffBind; Error: No sites have activity greater than filter value
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
A: Unbalanced experiment with multiple samples from each patient.
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