Showing : microarray • reset
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Probe off-target prediction: Identifying short sequence matches - potentially with mismatches & indels - in a transcriptome
Microarray Alignment Biostrings
written 13 months ago by ▴ 70
1
vote
2
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919
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
13 months ago Abdul ▴ 20
2
votes
2
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686
views
Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
13 months ago Abdul ▴ 20
0
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2
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715
views
Full list of differential genes not obtained in topTable
Microarray GEOquery topTable limma
updated 14 months ago by 50k • written 14 months ago by • 0
2
votes
2
replies
676
views
Question about avereps function of limma
avereps probes average limma Microarray
updated 14 months ago by 50k • written 14 months ago by ▴ 10
0
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0
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649
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Aligning Clariom D against reference Genome and transcriptome pipeline
Clariom Align MicroarrayData Alignment Microarray
15 months ago jsharif • 0
0
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1
reply
653
views
Micro Array GEO data analysis
GEOquery MicroarrayData Normalization Microarray NanoStringDiff
updated 16 months ago by 66k • written 16 months ago by • 0
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2
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958
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Remove batch effect between microarray data
Microarray DifferentialExpression limma MicroarrayData removebatcheffect
16 months ago dqt • 0
0
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2
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735
views
Celfiles not reading in
Microarray
written 17 months ago by • 0
6
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6
replies
1.5k
views
Too many differentially expressed miRNA with limma
limma miRNA Microarray
18 months ago Sara ▴ 10
1
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4
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2.7k
views
How to process Nimblegen microarray .pair files to get normalized expression matrix
Microarray Preprocessing NimbleGen Normalization
written 18 months ago by • 0
0
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17
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2.3k
views
Advice for the analysis of microarray data with limma
Microarray MicroarrayData limma
updated 15 months ago by 50k • written 19 months ago by • 0
0
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1
reply
697
views
Compare different cell lines with tissues using limma
limma MicroarrayData Microarray Agilent
updated 23 months ago by 50k • written 23 months ago by • 0
0
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8
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1.5k
views
Finding differentially expressed genes in a prospective cohort study
limma MicroarrayData Microarray
23 months ago YC • 0
0
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4
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1.1k
views
Thoughts on how to model gene expression data from two groups in a clinical trial
Microarray DifferentialExpression
23 months ago S • 0
1
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2
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841
views
Problem with results of Differential expression in Affymetrix microarray
limma MicroarrayData Microarray Affymetrix
24 months ago Mikołaj Mierzejewski • 0
1
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2
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1.1k
views
Affymetrix analysis of microarray by using Limma
limma MicroarrayData Microarray Affymetrix
24 months ago Mikołaj Mierzejewski • 0
4
votes
10
replies
1.9k
views
Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array
pd.hg.u219 Microarray oligo AffymetrixChip
2.0 years ago Yang Shi ▴ 10
3
votes
4
replies
1.7k
views
Quantile Normalization after rma or not?
limma Microarray oligo
2.0 years ago Yang Shi ▴ 10
2
votes
2
replies
829
views
Methods for removing unexpressed probes of Human Transcriptome Array HTA 2.0
hta20transcriptcluster.db Microarray oligo
2.0 years ago Yang Shi ▴ 10
2
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5
replies
1.9k
views
Get corresponding gene id for probe id from Affymetrix array
AnnotationDbi Microarray
2.0 years ago nhaus ▴ 40
0
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2
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800
views
Identifying multiple mappings with pd.clariom.d.human
clariomdhumantranscriptcluster.db MicroarrayData Microarray pd.clariom.d.human
2.1 years ago amir.rakhimov.b • 0
0
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2
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1.2k
views
Time course experiment using limma
limma Multi-levelExperiments Microarray
2.1 years ago Wendy • 0
0
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12
replies
1.6k
views
Annotating featureData to an affymetrix Xcel microarray
Microarray
2.1 years ago Adam • 0
0
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0
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634
views
Error in svd(X) when using edge lrt (or odp) function.
edge Microarray longitudinal
2.2 years ago emily • 0
2
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5
replies
1.9k
views
Adjust for base line gene expression in limma model
limma Microarray
updated 2.4 years ago by 50k • written 2.4 years ago by • 0
4
votes
6
replies
1.2k
views
RMA on different disease labels
rma background microarray normalization
updated 2.6 years ago by 66k • written 2.6 years ago by • 0
1
vote
1
reply
1.2k
views
Extracting a list of genes from the Gene Expression Omnibus with Geoquery.
Microarray GEOquery cancerdata MicroarrayData
updated 2.7 years ago by 66k • written 2.7 years ago by ▴ 50
5
votes
2
replies
2.3k
views
Query regarding the use of eBayes + topTable and treat + topTreat
Microarray limma DifferentialExpression
updated 21 months ago by 50k • written 2.8 years ago by ▴ 10
0
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1
reply
1.2k
views
Re-normalize microarray dataset in R
microarray quantile expression R Normalization
updated 2.9 years ago by ▴ 80 • written 2.9 years ago by ▴ 10
3
votes
5
replies
1.7k
views
Use of arrayWeights with two treatment groups
Microarray arrays limma MicroarrayData
updated 2.9 years ago by 50k • written 3.0 years ago by • 0
1
vote
1
reply
1.3k
views
How do I adjust for other factors in Limma differential expression analysis?
limma Microarray MicroarrayData arrays
updated 3.0 years ago by ★ 3.9k • written 3.0 years ago by • 0
1
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2
replies
1.4k
views
RUV4 for microarrays
RUV4 RUV Microarray
3.1 years ago Antonio • 0
0
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2
replies
2.1k
views
How to exclude outlier (Microarray ) from PCA in R
OutlierD pcaMethods MicroarrayData Microarray
3.1 years ago waiyin0923 • 0
0
votes
1
reply
886
views
Microarray: Build annotation for HT MG430PM affymetrix
AffymetrixChip Microarray affymetrix
updated 3.1 years ago by ★ 4.0k • written 3.1 years ago by • 0
1
vote
2
replies
1.3k
views
How to quantile normalize arraystar lncRNA microarray data?
limma Microarray
3.2 years ago • updated 3.1 years ago a.deb • 0
3
votes
3
replies
1.4k
views
Weird MAplot with DEGs lying along the diagonals
limma Microarray AgilentChip MA-plot Normalization
3.2 years ago FedeXander • 0
0
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2
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1.7k
views
WGCNA - Outliers after creating sample tree
MicroarrayData WGCNA Microarray
3.3 years ago jpwl2 • 0
6
votes
4
replies
1.3k
views
Limma outputs different results for same sample?
topTable MicroarrayData ebayes limma Microarray
3.3 years ago snijesh ▴ 20
1
vote
2
replies
1.4k
views
How to do limma on 3 factors with multiple levels (e.g 3-way anova) on microarray log values
interactions 3factors limma Microarray
3.3 years ago Dan ▴ 20
3
votes
9
replies
1.5k
views
limma analysis when only Cy5 was used
MicroarrayData limma Microarray
3.3 years ago Daniel.Schnell • 0
0
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0
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1.3k
views
how to find consensus modules between 2 datasets by different platform through WGCNA
consensusmodule microarray RNA-seq WGCNA
3.6 years ago modarzi ▴ 10
1
vote
3
replies
2.4k
views
Annotating [HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [transcript (gene) version] file
microarray annotation affy
3.6 years ago kiera.lee ▴ 10
4
votes
7
replies
1.5k
views
Limma sample groups
microarray limma affy cancer
updated 3.7 years ago by 50k • written 3.7 years ago by • 0
0
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2
replies
1.2k
views
Regarding ArrayExpress package
microarray arrayexpress
updated 3.7 years ago by 66k • written 3.7 years ago by • 0
0
votes
2
replies
1.1k
views
What is the best way to do annotation of the transcript clusters and filter in HTA 2.0
HTA2.0 microarray affy r
3.7 years ago Marco_aurelio • 0
1
vote
6
replies
1.8k
views
can negative value microarray matrix data analysed by limma directly
limma microarray normalization
updated 9 months ago by 50k • written 3.7 years ago by ▴ 20
1
vote
6
replies
2.2k
views
TCGA: clinical data and expression data
microarray annotation cancer
updated 15 months ago by • 0 • written 3.7 years ago by • 0
3
votes
1
reply
782
views
Create a '.db' package for agilent
R agilent microarray
updated 3.7 years ago by 66k • written 3.7 years ago by ▴ 20
0
votes
1
reply
830
views
Problem for installing arrayQualityMetrics package?
R Microarray
updated 3.8 years ago by ★ 3.9k • written 3.8 years ago by ▴ 20
50 results • Page 1 of 1
Recent ...
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Comment: conumee with Infinium MethylationEPIC v2.0 by Maximus • 0
Hi Sole, If there is a combined mixture of MSet of 450K, EPIC and EPICv2, how should I create an annotation object? I tried to create anno…
Comment: Volcano plot of scRNA-seq data not "centered" by tjl • 0
Thank you both. The code is below, simplified a bit for simplicity. ATpoint, your suggestion re: the top 20% of genes by baseMean makes me …
Comment: Cannot install oligo on Fedora by James W. MacDonald 66k
Wait a minute. The `oligo` package is *supposed to* be using `zlibbioc`, but apparently it is not. I get the same thing as you do, where it…
Comment: Cannot install oligo on Fedora by James W. MacDonald 66k
There is the `zlibbioc` package that provides the headers for zlib 1.2.5, that I think you should be able to use, although that would requi…
Answer: GSVA function by Robert Castelo ★ 3.3k
Hi, We recommend to input normalized expression values in logarithmic scale to GSVA. We also recommend to use the latest release of the …
Votes
DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Gene symbol
DESeq2 swap ensembl gene id rownames with gene symbol column
A: DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Ge
DESeq2: add annotations (from data frame) to DESeqDataSet
Add new columns to DESeqResults from text file by matching rownames.
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