5
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14
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2.1k
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DESeq2 a lot of genes showing up as differentially expressed that only have 1 sample with any expression
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updated 8 hours ago by • 0 • written 4.6 years ago by ▴ 10
14
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20
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The difference when using Limma compare between 3 conditions vs 2 conditions
limma
21 days ago • updated 2 hours ago Chris • 0
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Which input file is used for DGEList in EgdeR?
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updated 11 hours ago by • 0 • written 14 months ago by ▴ 10
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2
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Problem for loading Bioconductor package in R
Bioconductor
written 4.2 years ago by • 0
1
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816
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DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, parametric = FALSE, : NA/NaN/Inf in foreign function call (arg 1)"
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2
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5
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665
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DESeq2 setting significant p-value
DESeq2
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News: List of Deprecated Packages for Bioc3.19
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Estimating Cell Counts for EPIC V2 array data
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7
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343
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DESeq filtering specific to contrasts
DESeq2
updated 8 hours ago by 41k • written 9 weeks ago by • 0
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2
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214
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Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
featureCounts Rsubread
19 days ago • updated 9 hours ago isaac.vock • 0
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4
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DEG with low counts
DESeq2
updated 12 hours ago by 41k • written 5 days ago by • 0
1
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2
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183
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How to retrieve detailed regression results from deseq2
DESeq2
9 days ago • updated 4 hours ago Weiqian ▴ 10
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181
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FilterByExpr low counts with small sample size
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2 days ago • updated 7 hours ago Jonathan ▴ 10
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109
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Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind DESeq2 ATACSeq
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3
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2
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65
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OrgDb for maize
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0
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64
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Log-cpm values from limma
limma edgeR RNASeq
updated 15 hours ago by 50k • written 1 day ago by • 0
1
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Tutorial: Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
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11 hours ago • updated 6 hours ago BioinfGuru ▴ 30
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How to make DGEList and design matrix by edgeR package
DGEList edgeR
15 hours ago • updated 14 hours ago prity6459 • 0
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3
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48
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Error retrieving ensembl gene id using biomaRt...
biomaRt
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0
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1
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29
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RNAseq:Technical replicates from different batches
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0
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1
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19
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Cannabis and KEGGgraph
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updated 10 minutes ago by ▴ 30 • written 2 hours ago by • 0
0
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0
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FDR via q-value
qvalue
6 hours ago John • 0
23 results • Page 1 of 1
Recent ...
Replies
Answer: Cannabis and KEGGgraph by deeenes ▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) …
Answer: RNAseq:Technical replicates from different batches by Gordon Smyth 50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param by russ.bainer ▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Chris • 0
Hi Robert, If I don't want to use all pathway in c2 gene set but only a few pathways of interested, how can I do that? So we try to get a …
Comment: How to retrieve detailed regression results from deseq2 by Weiqian ▴ 10
Hi Michael, thanks for the answer! I'll have a look : )
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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