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watermelon
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535
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A survey of computational setups for Illumina Infinium DNA methylation EPIC array pipeline
DNAMethylation
wateRmelon
Computation
minfi
20 months ago
calen.p.ryan
• 0
0
votes
7
replies
987
views
Getting wrong rownames of MSet object when using pfilter from watermelon
wateRmelon
Illumina EPIC
pfilter
updated 4.4 years ago by
lschal
• 0 • written 4.4 years ago by
anne-kristin.stavrum
• 0
1
vote
3
replies
1.4k
views
Combining pfilter (wateRmelon) and preprocessNoob (minfi)
wateRmelon
minfi
methylation
pfilter
preprocessNoob
updated 4.7 years ago by
tgorri
▴ 10 • written 4.7 years ago by
sara.blocquiaux
• 0
0
votes
0
replies
1.1k
views
Error in ENmix::bmiq.mc(): BMIQ estimates encountered error, try to run it again
methylation
ENmix
BMIQ
wateRmelon
5.2 years ago
moldach
▴ 20
0
votes
1
reply
1.5k
views
MethylSet to MethyLumiSet
minfi
methylumi
watermelon
7.2 years ago
Tom
▴ 10
0
votes
5
replies
2.2k
views
Different errors when attempting to normalize using wateRmelon (v1.1.18)
wateRmelon
methylation
EPIC
normalization
7.3 years ago
Wade Davis
▴ 60
0
votes
2
replies
1.4k
views
Error while using BMIQ normalisation on a methylumiSet
limma
watermelon
methylumi
bmiq
updated 7.4 years ago by
tgorri
▴ 10 • written 7.4 years ago by
poojitha.stemcell
▴ 10
1
vote
2
replies
1.9k
views
QC/normalization standards for cancer studies with 450k array data
minfi
watermelon
cancer
450k
normalization
updated 8.8 years ago by
Kasper Daniel Hansen
★ 6.5k • written 8.8 years ago by
metamaden
▴ 10
0
votes
3
replies
2.0k
views
minfi getProbeInfo error ( was WateRmelon betaqn error)
watermelon
betaqn
pfilter
getProbeInfo
minfi
9.2 years ago
gctromp
▴ 10
0
votes
10
replies
2.2k
views
MethyLumiM to MethyLumiSet?
convert
lumi
methylumi
minfi
wateRmelon
convert
lumi
methylumi
minfi
wateRmelon
updated 10.5 years ago by
Tim Triche
★ 4.2k • written 10.5 years ago by
Martin Rijlaarsdam
▴ 190
10 results • Page
1 of 1
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Comment: Deseq2. decontXcounts not integers. Useful alternative?
by
ATpoint
★ 4.0k
I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…
Answer: Improving the design matrices vignette in RNAseq123
by
Gordon Smyth
50k
Thanks to Shian Su, we have confirmed that the problem in the design matrices vignette html is caused by a bug in knitr 1.44 (to do with sp…
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! I'll review my code from top to bottom.
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
James W. MacDonald
65k
So basically you are using HTML markup to set your subscripts and whatnot, and then `element_markdown` does the rest.
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
James W. MacDonald
65k
Oh snap. Foiled again. Here it is with spaces & ge ; and & lt ;
Votes
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
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