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wateRmelon
•
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0
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948
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A survey of computational setups for Illumina Infinium DNA methylation EPIC array pipeline
DNAMethylation
wateRmelon
Computation
minfi
3.2 years ago
calen.p.ryan
• 0
0
votes
7
replies
1.6k
views
Getting wrong rownames of MSet object when using pfilter from watermelon
wateRmelon
Illumina EPIC
pfilter
updated 5.9 years ago by
lschal
• 0 • written 5.9 years ago by
anne-kristin.stavrum
• 0
1
vote
3
replies
2.1k
views
Combining pfilter (wateRmelon) and preprocessNoob (minfi)
wateRmelon
minfi
methylation
pfilter
preprocessNoob
updated 6.1 years ago by
tgorri
▴ 10 • written 6.2 years ago by
sara.blocquiaux
• 0
0
votes
0
replies
1.6k
views
Error in ENmix::bmiq.mc(): BMIQ estimates encountered error, try to run it again
methylation
ENmix
BMIQ
wateRmelon
6.7 years ago
moldach
▴ 20
0
votes
1
reply
1.9k
views
MethylSet to MethyLumiSet
minfi
methylumi
watermelon
8.7 years ago
Tom
▴ 10
0
votes
5
replies
2.9k
views
Different errors when attempting to normalize using wateRmelon (v1.1.18)
wateRmelon
methylation
EPIC
normalization
8.8 years ago
Wade Davis
▴ 60
0
votes
2
replies
1.9k
views
Error while using BMIQ normalisation on a methylumiSet
limma
watermelon
methylumi
bmiq
updated 8.9 years ago by
tgorri
▴ 10 • written 8.9 years ago by
poojitha.stemcell
▴ 10
1
vote
2
replies
2.3k
views
QC/normalization standards for cancer studies with 450k array data
minfi
watermelon
cancer
450k
normalization
updated 10.3 years ago by
Kasper Daniel Hansen
★ 6.5k • written 10.3 years ago by
metamaden
▴ 10
0
votes
3
replies
2.6k
views
minfi getProbeInfo error ( was WateRmelon betaqn error)
watermelon
betaqn
pfilter
getProbeInfo
minfi
10.7 years ago
gctromp
▴ 10
0
votes
10
replies
2.9k
views
MethyLumiM to MethyLumiSet?
convert
lumi
methylumi
minfi
wateRmelon
convert
lumi
methylumi
minfi
wateRmelon
updated 12.0 years ago by
Tim Triche
★ 4.2k • written 12.0 years ago by
Martin Rijlaarsdam
▴ 190
10 results • Page
1 of 1
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Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
dan.gatti
• 0
I am, but perhaps I'm not understanding how it should work. > sse = DropletUtils::read10xCounts(curr_files[1], mtx.class = 'SVT_Sparse…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
James W. MacDonald
68k
Did you use the development version as Aaron suggested? There is an argument to read the market matrix file directly into an `SVT_SparseMat…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
dan.gatti
• 0
Was anyone else able to put the pieces together using the reply above? I read in one 10X sample using DropletUtils::read10xCounts() and thi…
Comment: Announcing GBCC 2025: The first-ever joint conference between Bioconductor and G
by
dzv20413
• 0
Wow, GBCC 2025 sounds amazing, can not wait to see the logo contest results! Also, I just played [Level Devil][1] and it is super addictive…
Comment: Memory error while running alignments
by
Erik Wright
▴ 150
How much memory is available on the computer? A distance matrix of 50k sequences requires at least 50k*50k/2 * 8 bytes = 10GB, assuming the…
Votes
Comment: Check removeBatchEffect effectiveness
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
Answer: DESeq2 design for haplotype MPRA
A: Different logFC (log2foldchange) values for genes from limma-voom and other too
Comment: Check removeBatchEffect effectiveness
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