0
votes
2
replies
1.1k
views
p-values histogram in case of no effect
deseq2
10.7 years ago itamarkanter • 0
3
votes
5
replies
2.0k
views
weird model design for DE analysis
RNASeq
updated 5 months ago by 53k • written 12.5 years ago by ▴ 140
21
votes
5
replies
19k
views
using duplicateCorrelation with limma+voom for RNA-seq data
limma voom
updated 10.7 years ago by 53k • written 11.7 years ago by ▴ 190
2
votes
5
replies
6.3k
views
Can I use the WGCNA dendrogram to display a heatmap of gene expression?
wgcna heatmap desq2 clustering
updated 10.7 years ago by ★ 1.6k • written 10.7 years ago by ▴ 270
0
votes
2
replies
2.3k
views
pdInfoBuilder fails on Affy's GeneChip Human Transcriptome Array 2.0
BiocViews Annotation Organism biocViews oligo oligoClasses BiocViews BiocViews Annotation
updated 10.7 years ago by ▴ 20 • written 12.0 years ago by ▴ 40
1
vote
2
replies
3.9k
views
Affy HTA 2.0 array analysis
Annotation affy Annotation affy
updated 10.7 years ago by ▴ 20 • written 12.4 years ago by ▴ 360
1
vote
2
replies
1.9k
views
Question about read.maimages
differential gene expression limma read.maimages
updated 10.7 years ago by 53k • written 10.7 years ago by ▴ 10
6
votes
3
replies
3.7k
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vooma lm.fit versus voom lmFit
limma
updated 10.7 years ago by 53k • written 10.7 years ago by ▴ 10
12
votes
7
replies
23k
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DESEq2 comparison with mulitple cell types under 2 conditions
deseq2 multiple factor design
updated 8 months ago by ▴ 740 • written 10.7 years ago by ▴ 50
1
vote
4
replies
2.2k
views
"BiocGenerics:::testPackage('PackageName')" works from R console but fails using "R CMD check PackageName" at terminal
software error cmd check bioconductor
10.7 years ago Wade Copeland ▴ 20
0
votes
1
reply
1.8k
views
workflowInstall issues; missing Windows binary
software error missing data workflowinstall
10.7 years ago anoll2 • 0
0
votes
2
replies
3.8k
views
Using RNA-Seq Workflow using Real Life FASTQ data - and Mouse Reference Genome
deseq2 deseqdataset rnaseqgene fastq reference genome
updated 10.7 years ago by 68k • written 10.7 years ago by • 0
0
votes
31
replies
6.3k
views
Error in find DEXSeq package
deseq dexseq
10.7 years ago engr.yahya602 • 0
0
votes
0
replies
1.9k
views
Circos Styling plots is now easy with canceR package
canceR visualization omiccircos
10.7 years ago kmezhoud ▴ 10
3
votes
16
replies
22k
views
featureCounts - paired-end data
featurecounts rsubread
updated 2.6 years ago by • 0 • written 10.7 years ago by ▴ 140
3
votes
2
replies
3.2k
views
Normalisation before RUVg and RUV2?
ruvseq ruv
updated 10.7 years ago by ▴ 980 • written 10.7 years ago by ▴ 160
0
votes
0
replies
1.3k
views
Creating model for DE analysis in tweeDEglm
tweedeseq
10.7 years ago keever1 • 0
1
vote
1
reply
2.1k
views
Error in Package GEOquery
geoquery error R microarray
updated 10.7 years ago by 68k • written 10.7 years ago by ▴ 20
2
votes
2
replies
4.1k
views
How to Normalize the Microarray Data Obtained from ncbi?
microarray normalization ncbi
updated 10.7 years ago by 68k • written 10.7 years ago by ▴ 20
1
vote
6
replies
4.5k
views
Calculate DESeq2 fold change of 1 gene to 1 of the sample
deseq2
updated 10.7 years ago by ★ 3.8k • written 10.7 years ago by ▴ 60
0
votes
1
reply
2.2k
views
Using PCA for unsupervised clustering of RNA-Seq with DESeq2
rnaseq pca deseq2 clustering
updated 10.7 years ago by 43k • written 10.7 years ago by ▴ 60
1
vote
3
replies
3.6k
views
DESeq2 effects of treatment at different time points including subject ID
deseq2 rnaseq differential gene expression
10.7 years ago Catalina Aguilar Hurtado ▴ 90
0
votes
1
reply
1.0k
views
Problems facing package installation
software error
updated 10.7 years ago by 25k • written 10.7 years ago by • 0
0
votes
0
replies
1.1k
views
clearing variables in SELEX package
SELEX
10.7 years ago sarifkin • 0
0
votes
3
replies
1.8k
views
Differential Expression of c.diff. microarray
arrayexpress differential expression
10.7 years ago SSK ▴ 10
5
votes
12
replies
3.0k
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DESeq2 multi-factor comparison problem
deseq2 rnaseq
10.7 years ago Vivek.b ▴ 100
3
votes
5
replies
15k
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cannot find -llapack + -lblas for package install
lblas llapack LinuxMint
10.7 years ago Eric P ▴ 10
2
votes
3
replies
3.8k
views
Diffbind counts vs. MACS2 scores
diffbind
10.7 years ago mm2489 ▴ 20
0
votes
6
replies
2.7k
views
is it possible to find sample batch # in CEL files?
PROcess PROcess
updated 10.7 years ago by • 0 • written 13.0 years ago by ▴ 40
3
votes
9
replies
2.9k
views
retreiving peak caller fold enrichments after generating consensus peakset in DiffBind
diffbind
updated 10.7 years ago by ★ 5.2k • written 10.7 years ago by ▴ 20
0
votes
0
replies
1.3k
views
crlmm: RFC - new feature to work on subsets of CEL files
crlmm
10.7 years ago Karl Forner ▴ 70
3
votes
5
replies
3.9k
views
PlotMA Error_Coercing to a vector
deseq2
10.7 years ago Jessica Chen ▴ 20
3
votes
6
replies
4.4k
views
Check understanding of linear model
linear model deseq2
updated 10.7 years ago by 68k • written 10.7 years ago by ▴ 90
0
votes
4
replies
2.1k
views
gcContent error with shortread
shortread
10.7 years ago danova_fr ▴ 20
2
votes
20
replies
12k
views
problem loading lumi package, Error : object ‘sqliteQuickSQL’ is not exported by 'namespace:RSQLite'
lumi
updated 10.7 years ago by • 0 • written 11.2 years ago by ▴ 10
2
votes
0
replies
2.4k
views
Job: 23andMe Job Opportunities
bioinformatician job bioinformatics scientist genetics Job
10.7 years ago rgentleman ★ 5.5k
7
votes
3
replies
1.7k
views
Extracting first member of each element of a matrix of lists
variantannotation vcf
updated 10.7 years ago by ★ 11k • written 10.7 years ago by 21k
1
vote
8
replies
4.5k
views
Intepretation of RUVseq/edgeR logFC
RUVseq logFC edgeR
10.7 years ago Marie • 0
0
votes
7
replies
2.3k
views
DiffBind fails to derive consensus peaksets
software error chipseq diffbind
updated 10.7 years ago by ▴ 670 • written 10.7 years ago by ▴ 320
0
votes
1
reply
2.5k
views
Scaled venn/euler diagram using makeVennDiagram
ChIPpeakAnno venn diagram
updated 10.7 years ago by ★ 1.3k • written 10.7 years ago by ▴ 30
2
votes
2
replies
6.7k
views
What are logCPM values in the Differentially Expressed Genes output
edgeR
10.7 years ago candida.vaz ▴ 50
1
vote
9
replies
3.9k
views
RUV: removing unwanted variation in RNA-seq
RUV ruvseq rnaseq
10.7 years ago sergio.espeso-gil • 0
1
vote
4
replies
1.7k
views
Specifically expressed genes
DESeq2 specific expression rnaseq clustering differential expression
updated 10.7 years ago by 43k • written 10.7 years ago by • 0
0
votes
0
replies
1.5k
views
Unexpected recursive unlist of bplapply (BiocParallel) results when using only one worker
biocparallel bplapply
10.7 years ago akaever ▴ 30
0
votes
5
replies
2.7k
views
SAAP-BS data analysis (RRBS) - BiSeq use and Coverage Histogram
biseq RRBS SAAP-BS coverage
10.7 years ago maria.maqueda • 0
0
votes
0
replies
1.2k
views
RamiGO: getAmigoTree producing internal server errors
ramigo
10.7 years ago Asta Laiho ▴ 120
1
vote
0
replies
2.4k
views
Job: Postdoctoral Research Fellow in Bioinformatics - Institute of Medical Biostatistics, Epidemiology and Informatics (IMBEI), Mainz, Germany
bioinformatician job rnaseq statistics systemsbiology Job
10.7 years ago Federico Marini ▴ 180
4
votes
2
replies
4.3k
views
Cannot load or update GO.db
GO.db bioclite
10.7 years ago Steve Pederson ▴ 170
9
votes
2
replies
6.1k
views
Limma Model Matrix Understanding
limma limma design matrix model matrix
updated 10.7 years ago by ★ 29k • written 10.7 years ago by ▴ 370
1
vote
2
replies
2.8k
views
readCufflinks omits gene name, ID replaced with XLOC_ ID. Any way to correct this?
cummerbund
updated 10.7 years ago by ▴ 370 • written 10.7 years ago by • 0
46,726 results • Page 458 of 935
Recent ...
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Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Martin Morgan 25k
I see rstudioapi in the `sessionInfo()`. RStudio does not support forked ('multicore') processes. Does the BiocParallel example work when y…
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
Given that this is an issue with BiocParallel on your machine and we have a minimal reproducible example, you may want to repost the issue.…
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by ATpoint ★ 5.0k
Yes, still it's not reproducible, yet hard to debug. I cannot reproduce myself either.
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Benjamin • 0
Still happening using pre-existing size factors estimating dispersions gene-wise dispersion estimates: 15 workers mean-dis…
Answer: BiocParallel (and DESeq2) - wrong args for environment subassignment by Benjamin • 0
Still happening in a clean install
Votes
Comment: limpa analysis advice
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
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