Showing : wateRmelon • reset
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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
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7
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1.6k
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Getting wrong rownames of MSet object when using pfilter from watermelon
wateRmelon Illumina EPIC pfilter
updated 5.9 years ago by • 0 • written 5.9 years ago by • 0
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2.1k
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Combining pfilter (wateRmelon) and preprocessNoob (minfi)
wateRmelon minfi methylation pfilter preprocessNoob
updated 6.1 years ago by ▴ 10 • written 6.2 years ago by • 0
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1.6k
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Error in ENmix::bmiq.mc(): BMIQ estimates encountered error, try to run it again
methylation ENmix BMIQ wateRmelon
6.7 years ago moldach ▴ 20
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1.9k
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MethylSet to MethyLumiSet
minfi methylumi watermelon
8.7 years ago Tom ▴ 10
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5
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2.9k
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Different errors when attempting to normalize using wateRmelon (v1.1.18)
wateRmelon methylation EPIC normalization
8.8 years ago Wade Davis ▴ 60
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2
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1.9k
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Error while using BMIQ normalisation on a methylumiSet
limma watermelon methylumi bmiq
updated 8.9 years ago by ▴ 10 • written 8.9 years ago by ▴ 10
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2
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2.3k
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QC/normalization standards for cancer studies with 450k array data
minfi watermelon cancer 450k normalization
updated 10.3 years ago by ★ 6.5k • written 10.3 years ago by ▴ 10
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3
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2.6k
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minfi getProbeInfo error ( was WateRmelon betaqn error)
watermelon betaqn pfilter getProbeInfo minfi
10.7 years ago gctromp ▴ 10
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10
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2.9k
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MethyLumiM to MethyLumiSet?
convert lumi methylumi minfi wateRmelon convert lumi methylumi minfi wateRmelon
updated 12.0 years ago by ★ 4.2k • written 12.0 years ago by ▴ 190
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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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