Showing : microarray • reset
1
vote
2
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360
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affy::rma results doesn't match with ncbi website
affy Preprocessing Microarray
updated 4 days ago by 68k • written 6 days ago by • 0
0
votes
1
reply
216
views
WGCNA sample-data preprocessing order
Microarray WGCNA GeneExpression
updated 8 weeks ago by ★ 4.7k • written 8 weeks ago by • 0
1
vote
8
replies
1.7k
views
Combining RNAseq and microarray data using edgeR/limma-voom
limma voom RNASeq edgeR Microarray
written 4 months ago by • 0
1
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5
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2.5k
views
pd.mogene.2.0st Error Installing in R 3.1.2
oligo microarray r bioconductor
written 10.1 years ago by ▴ 10
1
vote
4
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4.8k
views
How to process Nimblegen microarray .pair files to get normalized expression matrix
Microarray Preprocessing NimbleGen Normalization
written 2.3 years ago by • 0
2
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2
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3.8k
views
Biostatistician Position: UMass Medical School
Microarray Microarray
written 17.7 years ago by ▴ 190
0
votes
2
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1.1k
views
Probe off-target prediction: Identifying short sequence matches - potentially with mismatches & indels - in a transcriptome
Microarray Alignment Biostrings
written 23 months ago by ▴ 70
1
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2
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1.4k
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
23 months ago Abdul ▴ 20
2
votes
2
replies
987
views
Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
23 months ago Abdul ▴ 20
0
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2
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1.1k
views
Full list of differential genes not obtained in topTable
Microarray GEOquery topTable limma
updated 24 months ago by 52k • written 24 months ago by • 0
1
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6
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2.6k
views
can negative value microarray matrix data analysed by limma directly
limma microarray normalization
updated 19 months ago by 52k • written 4.5 years ago by ▴ 20
2
votes
2
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1.1k
views
Question about avereps function of limma
avereps probes average limma Microarray
updated 2.0 years ago by 52k • written 2.0 years ago by ▴ 10
0
votes
0
replies
912
views
Aligning Clariom D against reference Genome and transcriptome pipeline
Clariom Align MicroarrayData Alignment Microarray
2.1 years ago agamemnon • 0
0
votes
1
reply
925
views
Micro Array GEO data analysis
GEOquery MicroarrayData Normalization Microarray NanoStringDiff
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
0
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2
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1.4k
views
Remove batch effect between microarray data
Microarray DifferentialExpression limma MicroarrayData removebatcheffect
2.2 years ago dqt • 0
0
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2
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972
views
Celfiles not reading in
Microarray
written 2.2 years ago by • 0
3
votes
2
replies
8.0k
views
How to convert Illumina HT_12_v4 annotation
convert R annotation microarray illumina human ht-12 v4
updated 2.3 years ago by ▴ 200 • written 7.3 years ago by • 0
6
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6
replies
1.8k
views
Too many differentially expressed miRNA with limma
limma miRNA Microarray
2.3 years ago Sara ▴ 20
0
votes
17
replies
3.4k
views
Advice for the analysis of microarray data with limma
Microarray MicroarrayData limma
updated 2.1 years ago by 52k • written 2.4 years ago by • 0
0
votes
1
reply
988
views
Compare different cell lines with tissues using limma
limma MicroarrayData Microarray Agilent
updated 2.7 years ago by 52k • written 2.7 years ago by • 0
0
votes
8
replies
1.9k
views
Finding differentially expressed genes in a prospective cohort study
limma MicroarrayData Microarray
2.8 years ago • updated 2.7 years ago YC • 0
2
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13
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5.3k
views
Error in using r
microarray
updated 2.8 years ago by • 0 • written 8.4 years ago by • 0
0
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4
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1.4k
views
Thoughts on how to model gene expression data from two groups in a clinical trial
Microarray DifferentialExpression
2.8 years ago S • 0
1
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2
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1.1k
views
Problem with results of Differential expression in Affymetrix microarray
limma MicroarrayData Microarray Affymetrix
2.8 years ago Mikołaj Mierzejewski • 0
1
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2
replies
1.5k
views
Affymetrix analysis of microarray by using Limma
limma MicroarrayData Microarray Affymetrix
2.8 years ago Mikołaj Mierzejewski • 0
4
votes
10
replies
2.5k
views
Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array
pd.hg.u219 Microarray oligo AffymetrixChip
2.8 years ago Yang Shi ▴ 10
3
votes
4
replies
2.4k
views
Quantile Normalization after rma or not?
limma Microarray oligo
2.8 years ago Yang Shi ▴ 10
2
votes
2
replies
1.1k
views
Methods for removing unexpressed probes of Human Transcriptome Array HTA 2.0
hta20transcriptcluster.db Microarray oligo
2.8 years ago Yang Shi ▴ 10
2
votes
5
replies
3.1k
views
Get corresponding gene id for probe id from Affymetrix array
AnnotationDbi Microarray
2.9 years ago nhaus ▴ 70
0
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2
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1.1k
views
Identifying multiple mappings with pd.clariom.d.human
clariomdhumantranscriptcluster.db MicroarrayData Microarray pd.clariom.d.human
2.9 years ago amir.rakhimov.b • 0
1
vote
2
replies
1.9k
views
Time course experiment using limma
limma Multi-levelExperiments Microarray
2.9 years ago Wendy ▴ 10
0
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12
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2.1k
views
Annotating featureData to an affymetrix Xcel microarray
Microarray
3.0 years ago • updated 2.9 years ago Adam • 0
0
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0
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880
views
Error in svd(X) when using edge lrt (or odp) function.
edge Microarray longitudinal
3.0 years ago emily • 0
1
vote
7
replies
9.3k
views
Oligo RMA normalization : ERROR; return code from pthread_create() is 22
microarray normalization oligo HTA
updated 3.0 years ago by • 0 • written 6.2 years ago by ▴ 10
2
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5
replies
2.4k
views
Adjust for base line gene expression in limma model
limma Microarray
updated 3.2 years ago by 52k • written 3.3 years ago by • 0
4
votes
6
replies
1.7k
views
RMA on different disease labels
rma background microarray normalization
updated 3.4 years ago by 68k • written 3.4 years ago by • 0
1
vote
1
reply
1.6k
views
Extracting a list of genes from the Gene Expression Omnibus with Geoquery.
Microarray GEOquery cancerdata MicroarrayData
updated 3.5 years ago by 68k • written 3.5 years ago by ▴ 50
5
votes
2
replies
3.1k
views
Query regarding the use of eBayes + topTable and treat + topTreat
Microarray limma DifferentialExpression
updated 2.6 years ago by 52k • written 3.6 years ago by ▴ 10
0
votes
1
reply
1.5k
views
Re-normalize microarray dataset in R
microarray quantile expression R Normalization
updated 3.7 years ago by ▴ 80 • written 3.7 years ago by ▴ 10
3
votes
5
replies
2.2k
views
Use of arrayWeights with two treatment groups
Microarray arrays limma MicroarrayData
updated 3.7 years ago by 52k • written 3.8 years ago by • 0
1
vote
1
reply
1.9k
views
How do I adjust for other factors in Limma differential expression analysis?
limma Microarray MicroarrayData arrays
updated 3.9 years ago by ★ 4.0k • written 3.9 years ago by • 0
1
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2
replies
1.9k
views
RUV4 for microarrays
RUV4 RUV Microarray
3.9 years ago Antonio • 0
0
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2
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2.4k
views
How to exclude outlier (Microarray ) from PCA in R
OutlierD pcaMethods MicroarrayData Microarray
3.9 years ago waiyin0923 • 0
0
votes
1
reply
1.1k
views
Microarray: Build annotation for HT MG430PM affymetrix
AffymetrixChip Microarray affymetrix
updated 3.9 years ago by ★ 4.1k • written 3.9 years ago by • 0
1
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2
replies
1.7k
views
How to quantile normalize arraystar lncRNA microarray data?
limma Microarray
4.0 years ago • updated 3.9 years ago a.deb • 0
3
votes
3
replies
1.7k
views
Weird MAplot with DEGs lying along the diagonals
limma Microarray AgilentChip MA-plot Normalization
4.0 years ago FedeXandeR • 0
0
votes
2
replies
2.1k
views
WGCNA - Outliers after creating sample tree
MicroarrayData WGCNA Microarray
4.1 years ago jpwl2 • 0
8
votes
4
replies
1.6k
views
Limma outputs different results for same sample?
topTable MicroarrayData ebayes limma Microarray
4.1 years ago snijesh ▴ 200
1
vote
2
replies
1.7k
views
How to do limma on 3 factors with multiple levels (e.g 3-way anova) on microarray log values
interactions 3factors limma Microarray
4.1 years ago Dan ▴ 20
3
votes
9
replies
1.9k
views
limma analysis when only Cy5 was used
MicroarrayData limma Microarray
4.1 years ago Daniel.Schnell • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: DiffBind custom normalization factor by Abbie • 0
Hello! Thanks so much for adding dba.normalize and all the documentation in the manual! I'm hoping I can ask a follow-up question here. I…
Answer: CpGs with genomic positions greater than the chromosome size in EPICv2? by James W. MacDonald 68k
All of the annotation packages provided by Bioconductor are simply repackaging of existing data from one or more sources. In this case, the…
Comment: Using TPM from tximport of Salmon output for singscore by Kent • 0
Thank you for the suggestions Michael. Would you say that after filtering out the low count genes, `rlog(counts, blind = T)` is doing the s…
Comment: Using TPM from tximport of Salmon output for singscore by Michael Love 43k
For clustering generally we recommend `vst()` see the workflow for example. For working with individual samples, I can see how a scaling/t…
Comment: DESeq2 model - How to test case/control time course model when taking account wi by Michael Love 43k
I'd recommend working with a local statistician or someone familiar with linear models in R. I have to reserve my time on the support site …
Votes
clusterProfiler-GO enrichment Error
A: Machine learning in R book
Data preparation and Machine learning on time course RNAseq data
Data preparation and Machine learning on time course RNAseq data
Answer: Use of org.Rn.eg.db with GRCr8 reference genome
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