3
votes
8
replies
3.9k
views
Batch effects in limma
limma batch effect
updated 9.8 years ago by ★ 29k • written 9.8 years ago by • 0
0
votes
2
replies
1.6k
views
GCRMA segmentation fault
gcrma segmentation fault segfault
updated 9.8 years ago by 68k • written 9.8 years ago by • 0
0
votes
6
replies
2.6k
views
difficulty loading rsbml
rsbml rsbml
updated 9.8 years ago by • 0 • written 14.9 years ago by ★ 1.1k
2
votes
10
replies
3.0k
views
Package lists and other questions about the site
website r packages importing
9.8 years ago george.carlisle • 0
2
votes
2
replies
1.6k
views
limma making contrasts appropriately
limma design and contrast matrix
updated 9.8 years ago by ★ 13k • written 9.8 years ago by ▴ 20
4
votes
6
replies
7.3k
views
goseq: not able to limit by GO categories when using wallenius approximation for over-representation test
goseq
updated 9.8 years ago by ▴ 320 • written 9.8 years ago by ▴ 10
1
vote
2
replies
2.2k
views
ShortRead quality assessment functions (qa and qa2) from ShortReadQ object
shortread
updated 9.8 years ago by 25k • written 9.8 years ago by ▴ 150
1
vote
0
replies
1.5k
views
Job: Industry Postdoc at EMBL: Statistical Computing in Multi-Omics and Drug Target Validation
job Job
9.8 years ago Wolfgang Huber ★ 13k
3
votes
2
replies
1.9k
views
Why does requireNamespace("org.Hs.eg.db") load DBI and RSQLite?
org.hs.eg.db DBI rsqlite
updated 9.8 years ago by 25k • written 9.8 years ago by 53k
0
votes
5
replies
3.1k
views
How to get list of genes that are DE from the goseq analysis results
limma goseq mget edgeR
updated 9.8 years ago by 53k • written 9.8 years ago by ▴ 10
2
votes
4
replies
2.6k
views
Error: could not find function "DMLtest"
dss
9.8 years ago kafkaskid ▴ 20
4
votes
1
reply
6.6k
views
BPPARAM = bpparam() takes longer than using BPPARAM = SerialParam()
bplapply
updated 9.8 years ago by 25k • written 9.8 years ago by ▴ 10
4
votes
4
replies
2.6k
views
Why does Homo.sapiens import TxDb.Hsapiens.UCSC.hg19.knownGene instead of TxDb.Hsapiens.UCSC.hg38.knownGene?
homo.sapiens txdb annotation
updated 9.8 years ago by ★ 6.8k • written 9.8 years ago by ▴ 680
0
votes
1
reply
1.1k
views
plot Genome in aCGH
acgh
updated 9.8 years ago by 25k • written 9.8 years ago by • 0
1
vote
2
replies
1.3k
views
AnnotatedDataFrame crashes MS Visual Studio
affy software error
9.8 years ago Chris • 0
0
votes
2
replies
3.5k
views
Odd Odds Ratio in GOstats package
GO GOstats GO GOstats
updated 9.8 years ago by • 0 • written 11.7 years ago by ▴ 10
2
votes
3
replies
3.1k
views
import.bed fails on bed file with no scores
rtracklayer import bed files
9.8 years ago jmr • 0
2
votes
4
replies
2.9k
views
goseq pwf length bias plot: help interpreting plot
goseq
updated 9.8 years ago by ▴ 320 • written 9.8 years ago by ▴ 10
0
votes
2
replies
1.5k
views
negative value for minOverlap parameter
Rsubread minOverlap featureCounts
updated 9.8 years ago by ★ 3.6k • written 9.8 years ago by • 0
7
votes
2
replies
2.0k
views
limma experimental design
limma microarray
updated 9.8 years ago by 53k • written 9.8 years ago by ▴ 20
0
votes
1
reply
1.2k
views
Plot with two separated groups of genes.
scatter-plot clustering
updated 9.8 years ago by ▴ 10 • written 9.8 years ago by • 0
0
votes
0
replies
1.6k
views
Job: Bioinformatics First Research Engineer position
bioinformatician job next-generation sequencing sweden Job
9.8 years ago Nicolas Delhomme ▴ 320
0
votes
0
replies
1.8k
views
Job: Bioinformatics Research Engineer position
bioinformatician job next-generation sequencing sweden Job
9.8 years ago Nicolas Delhomme ▴ 320
5
votes
7
replies
2.1k
views
Co-expression between host and pathogen genes
edger rna-seq
updated 9.8 years ago by ★ 29k • written 9.8 years ago by ▴ 10
0
votes
0
replies
1.3k
views
minfi dmpFinder input
minfi
9.8 years ago igor ▴ 50
1
vote
3
replies
2.4k
views
Analyse of HGU133 set / Merge ExpressionSet
affy hgu133a hgu133b
updated 9.8 years ago by 68k • written 9.8 years ago by ▴ 40
0
votes
1
reply
1.3k
views
Aditional undesired sample
phyloseq
9.8 years ago sanrrone • 0
3
votes
1
reply
2.4k
views
Not able to display actual grayscale image using EBImage
ebimage image processing image display
updated 9.8 years ago by ▴ 750 • written 9.8 years ago by ▴ 10
1
vote
1
reply
2.0k
views
Differential binding using csaw
csaw differential binding analysis chipseq differential expression differential gene expression
updated 9.8 years ago by ★ 29k • written 9.8 years ago by ▴ 10
1
vote
9
replies
3.6k
views
Handling DNA sequence loaded from a file
r biostrings DNAsequence
updated 3.6 years ago by 68k • written 9.8 years ago by ▴ 260
0
votes
2
replies
1.8k
views
GOstat GO term format "GO:00003567" or "3567" ?
GOstat format input files
9.8 years ago bannistersc • 0
3
votes
3
replies
1.9k
views
edgeR: cpm() behavior appears to depend on whether edgeR is exported into the namespace. Is this normal?
edgeR namespace
updated 9.8 years ago by 53k • written 9.8 years ago by ▴ 80
0
votes
0
replies
1.1k
views
Package for classifying two classes of sequences using hidden markov models?
hmm classification
9.8 years ago vinod.acear ▴ 50
3
votes
15
replies
5.8k
views
Installing MethylationEPIC minifest and annotation
minfi methylation illuminahumanmethylationepicmanifest illumina
9.8 years ago rasii • 0
19
votes
4
replies
9.7k
views
Confidence intervals on edgeR logFC
edgeR statistics confidence interval
updated 9.8 years ago by • 0 • written 11.3 years ago by ▴ 40
2
votes
4
replies
6.7k
views
Interaction terms in DESeq2 contrasts
deseq2 interactions design and contrast matrix contrast
9.8 years ago dwzhang.wisc ▴ 20
5
votes
7
replies
3.2k
views
Using ShortRead (or other) to trim from pattern match onwards
shortread
updated 9.8 years ago by 25k • written 9.8 years ago by ▴ 20
1
vote
8
replies
2.6k
views
SummarizedExperiment Error! expressionSet data structure
software error summarizedexperiment
updated 9.8 years ago by 25k • written 9.8 years ago by ▴ 20
3
votes
3
replies
1.5k
views
RNA-seq genes differentially expressed in combined treatment
DESeq2 deseq2 RNA-seq
9.8 years ago david.ashbrook • 0
1
vote
1
reply
1.9k
views
edgeR, DE between 4 different samples
edger differential gene expression GLM Tutorial
updated 9.8 years ago by 68k • written 9.8 years ago by • 0
0
votes
2
replies
1.3k
views
R version 3.3.0 beta crashing, how do I roll back?
software error
updated 9.8 years ago by 25k • written 9.8 years ago by ▴ 420
5
votes
8
replies
1.9k
views
designing matrices practice
limma microarray
9.8 years ago christopher.clarskon15 ▴ 20
2
votes
2
replies
1.5k
views
goseq package: Is the package in sync with the most current Ensembl release?
goseq ensembl
updated 9.8 years ago by ★ 2.1k • written 9.8 years ago by ▴ 10
0
votes
1
reply
1.4k
views
plot pdf error
graph
updated 9.8 years ago by ★ 1.1k • written 9.8 years ago by • 0
1
vote
3
replies
2.4k
views
bsseq BSmooth error
bsseq
9.8 years ago enricoferrero ▴ 680
4
votes
3
replies
4.1k
views
limma: model/contrast matrix for 2x3 factorial design
limma multifactorial design design and contrast matrix limma design matrix limma contrast matrix
updated 9.8 years ago by 53k • written 9.8 years ago by • 0
1
vote
1
reply
1.2k
views
Clustering like samples with a lot of data
clustering
9.8 years ago gaiusjaugustus • 0
0
votes
4
replies
5.7k
views
goseq analysis - extracting list of my genes which are DE in the enriched GO category
GO Category goseq GO Category goseq
updated 9.8 years ago by ▴ 10 • written 14.4 years ago by ▴ 10
0
votes
2
replies
2.7k
views
Scaling fcs files with flowCore
flowCore flowcytometry
9.8 years ago Jiang, Mike ★ 1.3k
0
votes
6
replies
2.5k
views
Is that an efficient way to find the overlapped , upstream and downstream genes for a bunch of genes
genomicranges geneoverlap findoverlaps
updated 9.8 years ago by ★ 11k • written 9.8 years ago by • 0
46,721 results • Page 402 of 935
Recent ...
Replies
Comment: Joining different datasets and analyzing using the group-specific condition effe by jason.chai • 0
Thank you very much. I had read that and wondered if I used the recommendation in DESeq vignette, I would lose the pairing between groups? …
Comment: Questions about bacon QC and correction on EWAS results by sup0903 • 0
This is qq plot and histogram generated before bacon correction ![enter image description here][1] ![enter image description here][2] …
Comment: Ensembl site unresponsive via biomaRt by sebastianenewell • 0
> I think this is an unrelated issue. The original post includes the > message Error: 'curl_parse_url' is not an exported object from > 'na…
Comment: Development of MSstat workflow to analyze DIA time series data by Gordon Smyth 53k
Are there any other explanatory factors or covariates in your experiment other than time point? Do you have biological replicates at each t…
Answer: Question about the filterByExpr function inputs in edgeR by Gordon Smyth 53k
Either of these choices is perfectly acceptable from an edgeR analysis point of view, it is more to do with which is more relevant for your…
Votes
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
Answer: Clarification on counting in Rsubread (featureCounts)
Comment: Clarification on counting in Rsubread (featureCounts)
C: ControlGenes/ housekeeping genes Deseq2
Answer: Clarification on counting in Rsubread (featureCounts)
Awards • All
Popular Question to maltethodberg ▴ 180
Popular Question to mohammedtoufiq91 ▴ 10
Popular Question to Lluís Revilla Sancho ▴ 760
Commentator to James W. MacDonald 68k
Great Question to fl ▴ 20
Locations • All
Pacific Ocean, 8 minutes ago
The city by the bay, 13 minutes ago
Denmark, 22 minutes ago
United Kingdom, 1 hour ago
South Korea, 1 hour ago
Traffic: 1611 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6