Showing : dmrseq • reset
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Deconvolution methods from WGBS data (methylation)
methylCC deconvolution methylation dmrseq serum
9 months ago marcin.bazyliszek • 0
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1
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Suggestion dmrseq: generate Error when the adjustCovariate(s) generates a design that is not full rank
dmrseq methylation
15 months ago sorjuelal • 0
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1
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154
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unequal sample sizes in groups for testCovariate argument in dmrseq
dmrseq
17 months ago Stephanie Hicks • 80
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1
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205
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Using surrogate variables as covariates in WGBS differential methylation calling
dmrseq sva DSS
19 months ago gjl • 0 • updated 19 months ago keegan • 60
1
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4
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319
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dmrseq error: promise already under evaluation??
dmrseq Methylation
19 months ago sorjuelal • 0 • updated 19 months ago keegan • 60
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5
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364
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dmrseq installation failed
installation problem dmrseq bumphunter
2.2 years ago guy.bioinfo • 10 • updated 2.2 years ago shepherl 2.5k
3
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16
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545
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Internal bug of DMR-Seq?
dmrseq
2.3 years ago kuckunniwid • 0 • updated 2.2 years ago keegan • 60
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3
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297
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DMRseq smoothed values
dmrseq
2.4 years ago swebb1 • 0 • updated 2.4 years ago keegan • 60
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3
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385
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Determination of Hypo- or Hyper- methylation
dmrseq bsseq
2.7 years ago Bruno Verstraeten • 0 • updated 2.7 years ago James W. MacDonald 56k
2
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593
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dmrseq: cannot adjust for a covariate
dmrseq dmr dmrs bisulfite methylation
3.0 years ago l.kremer • 0 • updated 2.9 years ago keegan • 60
10 results • Page 1 of 1
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Comment: DESeq2 and shrinkage of log2 fold changes by Michael Love 31k
What do you mean that the set with FDR bound increases? Shrinkage methods in current versions of DESeq2 do not change the FDR (`padj` colum…
Answer: The compare result is different in score and Conc in DiffBind by shangguandong1996 • 20
I know in newer DiffBind version, the default of `score` argument is different, So I post a newer DiffBind version result. ``` library(…
Answer: Conc_1 in differnet dba.report result is slightly different by shangguandong1996 • 20
For a newer DiffBind version ``` library(DiffBind) library(BiocParallel) library(dplyr) tamoxifen <- dba(sampleSheet="tamoxifen.csv") ta…
Comment: Conc_1 in differnet dba.report result is slightly different by shangguandong1996 • 20
Hi, Dr Stark I just find you fixed the link, and I want to use the test data to reproduce my issue ``` library(DiffBind) library(BiocPara…
Comment: DESeq2 and shrinkage of log2 fold changes by Asier • 0
One question related to this. In the case of using the schrinkage (in my dataset of miRNA-seq) the number of SDE miRNAs (FDR) increases wit…
Votes
A: Performing differential gene analysis on RT PCR experimental data
A: Performing differential gene analysis on RT PCR experimental data
Comment: DESeq2: Significant padj and LFC in a 0 vs. 20 counts comparison?
A: Using the plotting functions of clusterProfiler / enrichplot with enrichment res
Comment: DESeq2: Significant padj and LFC in a 0 vs. 20 counts comparison?
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