Showing : Microarray • reset
0
votes
1
reply
1.2k
views
two questions about limma
Microarray limma Microarray limma
updated 1 day ago by 53k • written 18.8 years ago by ▴ 240
0
votes
1
reply
1.4k
views
How to avoid losing a sample as reference running an individual differential expression analysis (LIMMA)
Microarray limma BRAIN Microarray limma BRAIN
updated 4 months ago by 53k • written 16.8 years ago by ▴ 10
1
vote
2
replies
660
views
affy::rma results doesn't match with ncbi website
affy Preprocessing Microarray
updated 8 months ago by 68k • written 8 months ago by • 0
0
votes
1
reply
574
views
WGCNA sample-data preprocessing order
Microarray WGCNA GeneExpression
updated 10 months ago by ★ 5.0k • written 10 months ago by • 0
1
vote
8
replies
2.5k
views
Combining RNAseq and microarray data using edgeR/limma-voom
limma voom RNASeq edgeR Microarray
written 13 months ago by • 0
1
vote
5
replies
2.8k
views
pd.mogene.2.0st Error Installing in R 3.1.2
oligo microarray r bioconductor
written 10.8 years ago by ▴ 10
1
vote
4
replies
6.0k
views
How to process Nimblegen microarray .pair files to get normalized expression matrix
Microarray Preprocessing NimbleGen Normalization
written 3.0 years ago by • 0
2
votes
2
replies
4.1k
views
Biostatistician Position: UMass Medical School
Microarray Microarray
written 18.4 years ago by ▴ 190
0
votes
2
replies
1.3k
views
Probe off-target prediction: Identifying short sequence matches - potentially with mismatches & indels - in a transcriptome
Microarray Alignment Biostrings
written 2.6 years ago by ▴ 70
1
vote
2
replies
1.7k
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
2.6 years ago Abdul ▴ 20
2
votes
2
replies
1.2k
views
Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
2.6 years ago Abdul ▴ 20
0
votes
2
replies
1.4k
views
Full list of differential genes not obtained in topTable
Microarray GEOquery topTable limma
updated 2.7 years ago by 53k • written 2.7 years ago by • 0
1
vote
6
replies
3.0k
views
can negative value microarray matrix data analysed by limma directly
limma microarray normalization
updated 2.3 years ago by 53k • written 5.2 years ago by ▴ 20
2
votes
2
replies
1.4k
views
Question about avereps function of limma
avereps probes average limma Microarray
updated 2.7 years ago by 53k • written 2.7 years ago by ▴ 10
0
votes
0
replies
1.1k
views
Aligning Clariom D against reference Genome and transcriptome pipeline
Clariom Align MicroarrayData Alignment Microarray
2.8 years ago agamemnon • 0
0
votes
1
reply
1.1k
views
Micro Array GEO data analysis
GEOquery MicroarrayData Normalization Microarray NanoStringDiff
updated 2.8 years ago by 68k • written 2.8 years ago by • 0
0
votes
2
replies
1.7k
views
Remove batch effect between microarray data
Microarray DifferentialExpression limma MicroarrayData removebatcheffect
2.9 years ago dqt • 0
0
votes
2
replies
1.1k
views
Celfiles not reading in
Microarray
written 2.9 years ago by • 0
3
votes
2
replies
8.9k
views
How to convert Illumina HT_12_v4 annotation
convert R annotation microarray illumina human ht-12 v4
updated 3.0 years ago by ▴ 200 • written 8.0 years ago by • 0
6
votes
6
replies
2.2k
views
Too many differentially expressed miRNA with limma
limma miRNA Microarray
3.0 years ago Sara ▴ 20
0
votes
17
replies
4.2k
views
Advice for the analysis of microarray data with limma
Microarray MicroarrayData limma
updated 2.8 years ago by 53k • written 3.1 years ago by • 0
0
votes
1
reply
1.2k
views
Compare different cell lines with tissues using limma
limma MicroarrayData Microarray Agilent
updated 3.4 years ago by 53k • written 3.4 years ago by • 0
0
votes
8
replies
2.2k
views
Finding differentially expressed genes in a prospective cohort study
limma MicroarrayData Microarray
3.4 years ago YC • 0
2
votes
13
replies
5.7k
views
Error in using r
microarray
updated 3.5 years ago by • 0 • written 9.1 years ago by • 0
0
votes
4
replies
1.6k
views
Thoughts on how to model gene expression data from two groups in a clinical trial
Microarray DifferentialExpression
3.5 years ago S • 0
1
vote
2
replies
1.3k
views
Problem with results of Differential expression in Affymetrix microarray
limma MicroarrayData Microarray Affymetrix
3.5 years ago Mikołaj Mierzejewski • 0
1
vote
2
replies
1.9k
views
Affymetrix analysis of microarray by using Limma
limma MicroarrayData Microarray Affymetrix
3.5 years ago Mikołaj Mierzejewski • 0
4
votes
10
replies
3.0k
views
Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array
pd.hg.u219 Microarray oligo AffymetrixChip
3.5 years ago Yang Shi ▴ 10
3
votes
4
replies
2.8k
views
Quantile Normalization after rma or not?
limma Microarray oligo
3.5 years ago Yang Shi ▴ 10
2
votes
2
replies
1.3k
views
Methods for removing unexpressed probes of Human Transcriptome Array HTA 2.0
hta20transcriptcluster.db Microarray oligo
3.5 years ago Yang Shi ▴ 10
2
votes
5
replies
3.8k
views
Get corresponding gene id for probe id from Affymetrix array
AnnotationDbi Microarray
3.6 years ago nhaus ▴ 70
0
votes
2
replies
1.3k
views
Identifying multiple mappings with pd.clariom.d.human
clariomdhumantranscriptcluster.db MicroarrayData Microarray pd.clariom.d.human
3.6 years ago amir.rakhimov.b • 0
1
vote
2
replies
2.2k
views
Time course experiment using limma
limma Multi-levelExperiments Microarray
3.6 years ago Wendy ▴ 10
0
votes
12
replies
2.4k
views
Annotating featureData to an affymetrix Xcel microarray
Microarray
3.6 years ago Adam • 0
0
votes
0
replies
1.0k
views
Error in svd(X) when using edge lrt (or odp) function.
edge Microarray longitudinal
3.7 years ago emily • 0
1
vote
7
replies
10k
views
Oligo RMA normalization : ERROR; return code from pthread_create() is 22
microarray normalization oligo HTA
updated 3.7 years ago by • 0 • written 6.9 years ago by ▴ 10
2
votes
5
replies
2.7k
views
Adjust for base line gene expression in limma model
limma Microarray
updated 3.9 years ago by 53k • written 4.0 years ago by • 0
4
votes
6
replies
2.0k
views
RMA on different disease labels
rma background microarray normalization
updated 4.1 years ago by 68k • written 4.1 years ago by • 0
1
vote
1
reply
1.8k
views
Extracting a list of genes from the Gene Expression Omnibus with Geoquery.
Microarray GEOquery cancerdata MicroarrayData
updated 4.2 years ago by 68k • written 4.2 years ago by ▴ 50
5
votes
2
replies
3.5k
views
Query regarding the use of eBayes + topTable and treat + topTreat
Microarray limma DifferentialExpression
updated 3.3 years ago by 53k • written 4.3 years ago by ▴ 10
0
votes
1
reply
1.7k
views
Re-normalize microarray dataset in R
microarray quantile expression R Normalization
updated 4.4 years ago by ▴ 90 • written 4.4 years ago by ▴ 10
3
votes
5
replies
2.5k
views
Use of arrayWeights with two treatment groups
Microarray arrays limma MicroarrayData
updated 4.4 years ago by 53k • written 4.5 years ago by • 0
1
vote
1
reply
2.1k
views
How do I adjust for other factors in Limma differential expression analysis?
limma Microarray MicroarrayData arrays
updated 4.6 years ago by ★ 4.0k • written 4.6 years ago by • 0
1
vote
2
replies
2.2k
views
RUV4 for microarrays
RUV4 RUV Microarray
4.6 years ago Antonio • 0
0
votes
2
replies
2.8k
views
How to exclude outlier (Microarray ) from PCA in R
OutlierD pcaMethods MicroarrayData Microarray
4.6 years ago waiyin0923 • 0
0
votes
1
reply
1.3k
views
Microarray: Build annotation for HT MG430PM affymetrix
AffymetrixChip Microarray affymetrix
updated 4.6 years ago by ★ 4.1k • written 4.6 years ago by • 0
1
vote
2
replies
2.2k
views
How to quantile normalize arraystar lncRNA microarray data?
limma Microarray
4.7 years ago • updated 4.6 years ago a.deb • 0
3
votes
3
replies
1.9k
views
Weird MAplot with DEGs lying along the diagonals
limma Microarray AgilentChip MA-plot Normalization
4.7 years ago FedeXandeR • 0
0
votes
2
replies
2.4k
views
WGCNA - Outliers after creating sample tree
MicroarrayData WGCNA Microarray
4.8 years ago jpwl2 • 0
9
votes
4
replies
1.9k
views
Limma outputs different results for same sample?
topTable MicroarrayData ebayes limma Microarray
4.8 years ago snijesh ▴ 200
2,319 results • Page 1 of 47
Recent ...
Replies
Comment: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k
It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …
Comment: problem reading bam files into nucleR by efoss ▴ 10
I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…
Answer: two questions about limma by Gordon Smyth 53k
Answered here: https://support.bioconductor.org/p/16318/
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication? by Ahmed Salah • 0
Thank you very much! will take that into consideration
Comment: Large logFC but somewhat high FDR by JKim • 0
Thank you very much for taking the time to answer the question. I really appreciate your insights and comments.
Votes
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
Awards • All
Popular Question to shepherl 4.2k
Popular Question to Gordon Smyth 53k
Popular Question to k___ ▴ 30
Popular Question to efoss ▴ 10
Popular Question to James W. MacDonald 68k
Locations • All
United States, 14 minutes ago
Russia, 53 minutes ago
Russia, 1 hour ago
United States, 2 hours ago
United Kingdom, 2 hours ago
Traffic: 969 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