1
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4
replies
2.5k
views
number of cell clusters in scRNA-seq
scran scater sc3
updated 6.6 years ago by ★ 29k • written 6.6 years ago by ▴ 670
0
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6
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5.5k
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Error in getOneSeqFromBSgenomeMultipleSequences During singeR tutorial
error
6.6 years ago dfcarril • 0
0
votes
0
replies
996
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Aldex2 BioCParallel issues
aldex2
updated 6.6 years ago by 25k • written 6.6 years ago by ▴ 20
0
votes
4
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2.5k
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DESeq2 compare all_vs_all levels error
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updated 6.6 years ago by ★ 1.4k • written 6.6 years ago by ▴ 30
1
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2
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MINFI Data merging and Normalization
microarray
updated 6.6 years ago by 68k • written 6.6 years ago by • 0
7
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4
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9.0k
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biomaRt question for GO term search
biomaRt GO term
updated 2.9 years ago by ★ 6.6k • written 6.6 years ago by ▴ 10
0
votes
2
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2.5k
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Normalized count in edger
edger
updated 6.6 years ago by ▴ 10 • written 6.6 years ago by • 0
0
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2
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1.2k
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DEXSeq error in dexseq_count.py. ValueError: need more than 4 values to unpack
DEXSeq
updated 6.6 years ago by ★ 3.8k • written 6.6 years ago by • 0
2
votes
4
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2.0k
views
Majority upregulated genes in edgeR
edger differential expression genes fold change
updated 6.6 years ago by ★ 29k • written 6.6 years ago by • 0
1
vote
3
replies
1.9k
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Combining multiple L2FC values and determining variance
deseq2
6.6 years ago David Eccles (gringer) ▴ 30
1
vote
1
reply
784
views
Gviz and AnnotateTrack and memory usage
annotation
6.6 years ago rejpl ▴ 10
0
votes
1
reply
558
views
Differential Expression of Microarray Affymetrix data.
limma
6.6 years ago parita.ratnani • 0
0
votes
1
reply
722
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pakagae sm and package caroline
R caroline sm MASS
6.6 years ago prabin.dm • 0
0
votes
1
reply
1.4k
views
[DESeq2] LFC shrinkage and p-adjusted output
deseq2 normalization
updated 6.6 years ago by 43k • written 6.6 years ago by • 0
0
votes
2
replies
1.9k
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Boruta and mtry parameter
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updated 6.6 years ago by 25k • written 6.6 years ago by ▴ 10
0
votes
2
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1.3k
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u133aaofav2 platform gcrma Normalization
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6.6 years ago samane.khoshbakht • 0
4
votes
9
replies
3.3k
views
BiocManager v. 3.9 - where is it?
biocmanager
updated 6.6 years ago by 25k • written 6.6 years ago by ▴ 10
0
votes
1
reply
2.5k
views
Downloading HTSeq raw reads with TCGABiolinks
TCGAbiolinks RNASEQ
6.6 years ago sherajilir • 0
0
votes
1
reply
1.2k
views
Cannot find the package RDRToolbox that has been installed
software error
updated 6.6 years ago by 4.3k • written 6.6 years ago by • 0
0
votes
0
replies
785
views
legChrom = NA doesn't hide legend
chromPlot
6.6 years ago jordi.planells • 0
0
votes
1
reply
1.3k
views
DESeq2: three conditions lfcShrink CvsB analysis
deseq2 lfcShrink
updated 6.6 years ago by 43k • written 6.6 years ago by • 0
1
vote
7
replies
1.5k
views
how to set design for this DOE in DESeq2
deseq2
updated 6.6 years ago by 43k • written 6.6 years ago by ▴ 10
0
votes
1
reply
835
views
Help with formula design for DESeq2
DESeq2
updated 6.6 years ago by 43k • written 6.6 years ago by • 0
0
votes
1
reply
1.5k
views
The query to the BioMart webservice returned an invalid result: biomaRt expected a character string
biomart ensembl R Bioconductor
6.6 years ago lbuo • 0
3
votes
4
replies
3.1k
views
MDS plotting within the limma/voom workflow
limma voom deseq2
updated 6.6 years ago by 53k • written 6.6 years ago by ▴ 50
3
votes
3
replies
1.0k
views
Quiery to biomart returned an invalid result
R biomaRt
updated 6.6 years ago by ★ 6.6k • written 6.6 years ago by ▴ 10
0
votes
3
replies
2.2k
views
Module membership vs gene significance result and Modules-trait relationships reuslt have a different trend
WGCNA
updated 9 months ago by • 0 • written 6.6 years ago by • 0
0
votes
0
replies
1.2k
views
Job: REBIT-POD EMBL-IIT postdoctoral fellowships between Italy and UK
nanopore job EMBL IIT Job
6.6 years ago mattia pelizzola ▴ 200
4
votes
1
reply
1.2k
views
Cannot determine whether maintainer is subscribed to the bioc-devel mailing list (requires admin credentials).
software error
updated 6.6 years ago by ★ 6.6k • written 6.6 years ago by ▴ 10
1
vote
3
replies
1.9k
views
Killed 9 on macOS Mojave for Rsubread buildindex
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updated 6.6 years ago by ★ 3.6k • written 6.6 years ago by • 0
0
votes
7
replies
3.9k
views
Issue installing RNA-seq workflow
software error deseq2 workflow rnaseqGene
updated 6.6 years ago by 25k • written 6.6 years ago by • 0
4
votes
2
replies
1.5k
views
Build GPos from IPos
genomicranges granges gpos
updated 6.6 years ago by 16k • written 7.4 years ago by ▴ 180
2
votes
5
replies
3.1k
views
Warning in makeTxDbFromGFF
txdb
updated 4.8 years ago by 16k • written 6.6 years ago by ▴ 10
0
votes
1
reply
453
views
DESeqDataSetFromMatrix error: dds file described as <Object with null pointers>
deseq2
updated 6.6 years ago by 43k • written 6.6 years ago by • 0
2
votes
4
replies
2.2k
views
rma summarization error when normalizing using oligo and brainarray cdf
oligo brainarray mbni
6.6 years ago Moosa • 0
1
vote
6
replies
3.5k
views
adjusting for confounding effects in edgeR
edger confounding
updated 6.6 years ago by ★ 29k • written 6.6 years ago by • 0
5
votes
3
replies
2.0k
views
Combining counts from non-replicate samples in RNA-Seq analysis for a synergistic system
edger normalization counts RNA-seq
updated 6.6 years ago by ★ 29k • written 6.6 years ago by • 0
1
vote
8
replies
3.6k
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DESeq2/SummarizedExperiment RStudio shows Object With Null Pointer
deseq2 null summarizedexperiment rstudio
updated 6.6 years ago by 25k • written 6.6 years ago by • 0
1
vote
4
replies
1.8k
views
tximport from Galaxy output
normalization tximport
updated 4.2 years ago by • 0 • written 6.6 years ago by ▴ 20
0
votes
4
replies
2.0k
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Error message: "Request to BioMart web service failed."
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updated 6.6 years ago by ★ 6.6k • written 6.6 years ago by • 0
0
votes
0
replies
596
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(R pkg) Pathview Question: How to set node size?
r
6.6 years ago lihe.liu • 0
0
votes
1
reply
617
views
To check samples in manifest that do not have IDAT files
software error
6.6 years ago pspooja111 • 0
0
votes
3
replies
1.4k
views
Hello ! does anybody failed to convert id using getBM in biomaRt package?
biomaRt getBM
updated 6.6 years ago by 68k • written 6.6 years ago by ▴ 20
1
vote
5
replies
2.1k
views
bug in "dispersion" argument in edgeR - rpkmByGroup
edger rpkm
updated 6.6 years ago by • 0 • written 6.6 years ago by • 0
1
vote
2
replies
757
views
BioMart webservice returned an invalid result
software error annotation BioMart
updated 6.6 years ago by ★ 6.6k • written 6.6 years ago by ▴ 20
0
votes
7
replies
2.6k
views
ATACseqQC shiftGAlignmentsList leads to (all(elementNROWS)>3) is not TRUE error
ATACseqQC ATAC ATACseq software error Tutorial
updated 6.6 years ago by ★ 13k • written 6.6 years ago by • 0
9
votes
10
replies
3.1k
views
Any efficient workaround to identify highly variable genes in Affymetrix microarray expression data?
limma microarray genefilter deseq2
6.6 years ago Jurat Shahidin ▴ 80
0
votes
3
replies
1.6k
views
Error in if (all(x <= minReadCount) & lambda <= minReadCount) { : missing value where TRUE/FALSE needed
cnmops cn.mops error
updated 6.6 years ago by 25k • written 6.6 years ago by • 0
0
votes
7
replies
3.3k
views
differential expression between clusters (in distinct "treatments") in scRNAseq
scater limma scde scran sc3
6.6 years ago Bogdan ▴ 670
0
votes
1
reply
1.2k
views
negative AD value interfering with readVcfasVRanges
VariantAnnotation
updated 6.6 years ago by ★ 11k • written 6.7 years ago by • 0
46,741 results • Page 207 of 935
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Comment: Error message that there is no package called Biobase by DamionLedner99 • 0
thanks for sharing!!! https://cran.r-project.org/
Comment: msmsTests, inconsistent sign between lFC.Av and LogFC by Ben • 0
Continued here due to posting difficulties: Extract from the results table: ``` Inhibitor Vehicle lFC.Av LogFC ... F1 0.0 27…
Answer: DESeq2 for 16S rRNA Analysis by James W. MacDonald 68k
The Wald test is only meant for comparison of two groups at a time, so it depends on what you mean by 'analyze across multiple groups at a …
Comment: MetaDE.pvalue: Error in xj[i]: invalid subscript type 'list' by varying.mastodon.isyn • 0
Oh, that error! I remember wrestling with that one for hours when I was first learning Python. Turns out I was trying to use a list itself …
Comment: Confirm that OpenStats will not be archived (pryr dependency) by Marina • 0
Thank you!
Votes
Answer: What happens to genes with low dispersion during dispersion shrinkage in DESeq2
Comment: Are transformed values from rlog /vst log2 normalized counts?
Answer: Are transformed values from rlog /vst log2 normalized counts?
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