Showing : sesame • reset
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sigDF object in sesame
sesame sesameData
7 weeks ago Ramiro • 0
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13
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When doing differential methylation using the sesame package, seems to only go one way
methylation sesame methylationArrayAnalysis
updated 13 months ago by ▴ 20 • written 13 months ago by ▴ 10
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In the sesame package, what does the estimate output mean from testEnrichment()
MethylationArray methylation sesame methylationArrayAnalysis
13 months ago ramiro.barrantes ▴ 10
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Open Sesame: in what genes are my differentially methylated probes!!
MethylationArray sesameData sesame
updated 10 months ago by • 0 • written 13 months ago by ▴ 10
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4
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SeSAMe DMR for EPIC V2
sesame EPICv2manifest epicv2
updated 12 weeks ago by • 0 • written 15 months ago by ▴ 50
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2.0k
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Batch effect correction: methylome data
sesame BatchEffect MethylationArray
updated 17 months ago by ▴ 20 • written 17 months ago by • 0
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Looking for equivalent EPIC chip v1 vs. v2 annotation variables
sesame IlluminaHumanMethylationEPICv2anno.20a1.hg38 methylationEPICv2.0 EpicV2
updated 19 months ago by • 0 • written 23 months ago by ▴ 10
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sesameDataCache is not work properly on my system
sesameData sesameDataCache sesame ExperimentalHub
updated 7 months ago by • 0 • written 23 months ago by • 0
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3
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Difficulty creating summarized experiment
sesame sesameData
updated 2.9 years ago by ▴ 20 • written 2.9 years ago by • 0
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2
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1.6k
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How to build a GRangesList where each GRanges element is a CDS coordinate of gene transcripts?
GenomicRanges sesame sesameData GenomicFeatures
4.1 years ago Pratik Mehta ▴ 10
10 results • Page 1 of 1
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Comment: Help with defining groups by Phinney, Brett ▴ 10
I got it working , thank you!!!
Comment: Check removeBatchEffect effectiveness by massimo • 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package by ksankaran • 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset? by ATpoint ★ 5.0k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes by ATpoint ★ 5.0k
Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
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