Showing : Microarray • reset
2
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2
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1.1k
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limma for gene expression analysis with big and unbalanced sample size
limma microarray statistics
updated 17 days ago by • 0 • written 8.0 years ago by • 0
5
votes
8
replies
8.8k
views
Limma design with continuous and categorical covariates
limma batch effect covariates microarray
updated 24 days ago by • 0 • written 7.8 years ago by ▴ 30
1
vote
5
replies
2.2k
views
pd.mogene.2.0st Error Installing in R 3.1.2
oligo microarray r bioconductor
written 9.3 years ago by ▴ 10
2
votes
2
replies
2.4k
views
Biostatistician Position: UMass Medical School
Microarray Microarray
written 16.8 years ago by ▴ 190
1
vote
4
replies
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
11
votes
4
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1.9k
views
LIMMA dupcor() function time issue.
limma microarray block
updated 7 months ago by 50k • written 5.3 years ago by • 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
0
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2
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1.4k
views
Calculation of t-tests for factorial design
Microarray limma Microarray limma
written 13.7 years ago by ▴ 80
0
votes
2
replies
719
views
Probe off-target prediction: Identifying short sequence matches - potentially with mismatches & indels - in a transcriptome
Microarray Alignment Biostrings
written 12 months ago by ▴ 70
0
votes
7
replies
1.4k
views
A question about Limma
PROcess Microarray limma
19.4 years ago • updated 12 months ago Gordon Smyth 50k
1
vote
2
replies
914
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
13 months ago Abdul ▴ 20
2
votes
2
replies
679
views
Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
13 months ago Abdul ▴ 20
0
votes
2
replies
707
views
Full list of differential genes not obtained in topTable
Microarray GEOquery topTable limma
updated 13 months ago by 50k • written 13 months ago by • 0
2
votes
2
replies
671
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
votes
0
replies
637
views
Aligning Clariom D against reference Genome and transcriptome pipeline
Clariom Align MicroarrayData Alignment Microarray
14 months ago jsharif • 0
7
votes
1
reply
15k
views
ERROR: No residual degrees of freedom in linear model fits
Microarray
updated 15 months ago by • 0 • written 10.1 years ago by ▴ 40
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
0
votes
17
replies
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
votes
1
reply
647
views
Micro Array GEO data analysis
GEOquery MicroarrayData Normalization Microarray NanoStringDiff
updated 15 months ago by 65k • written 15 months ago by • 0
0
votes
2
replies
951
views
Remove batch effect between microarray data
Microarray DifferentialExpression limma MicroarrayData removebatcheffect
16 months ago dqt • 0
0
votes
2
replies
728
views
Celfiles not reading in
Microarray
written 16 months ago by • 0
2
votes
6
replies
3.6k
views
Convert Chromosome postions to hgnc_symbol using R
microarray
updated 17 months ago by • 0 • written 4.4 years ago by • 0
1
vote
2
replies
6.3k
views
How to convert Illumina HT_12_v4 annotation
convert R annotation microarray illumina human ht-12 v4
updated 17 months ago by ▴ 20 • written 6.4 years ago by • 0
6
votes
6
replies
1.4k
views
Too many differentially expressed miRNA with limma
limma miRNA Microarray
18 months ago Sara ▴ 10
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
votes
1
reply
692
views
Compare different cell lines with tissues using limma
limma MicroarrayData Microarray Agilent
updated 22 months ago by 50k • written 22 months ago by • 0
0
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8
replies
1.5k
views
Finding differentially expressed genes in a prospective cohort study
limma MicroarrayData Microarray
23 months ago YC • 0
2
votes
13
replies
4.5k
views
Error in using r
microarray
updated 23 months ago by • 0 • written 7.6 years ago by • 0
0
votes
4
replies
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
vote
2
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835
views
Problem with results of Differential expression in Affymetrix microarray
limma MicroarrayData Microarray Affymetrix
23 months ago Mikołaj Mierzejewski • 0
1
vote
2
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1.1k
views
Affymetrix analysis of microarray by using Limma
limma MicroarrayData Microarray Affymetrix
23 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 • updated 24 months ago Yang Shi ▴ 10
3
votes
4
replies
1.7k
views
Quantile Normalization after rma or not?
limma Microarray oligo
2.0 years ago • updated 24 months ago Yang Shi ▴ 10
2
votes
2
replies
819
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
votes
5
replies
1.8k
views
Get corresponding gene id for probe id from Affymetrix array
AnnotationDbi Microarray
2.0 years ago nhaus ▴ 30
0
votes
2
replies
793
views
Identifying multiple mappings with pd.clariom.d.human
clariomdhumantranscriptcluster.db MicroarrayData Microarray pd.clariom.d.human
2.0 years ago amir.rakhimov.b • 0
5
votes
11
replies
4.9k
views
Duplicate gene ID's returned from limma microarray analysis
limma microarray
updated 2.1 years ago by 50k • written 7.4 years ago by ▴ 70
0
votes
2
replies
1.1k
views
Time course experiment using limma
limma Multi-levelExperiments Microarray
2.1 years ago Wendy • 0
0
votes
12
replies
1.6k
views
Annotating featureData to an affymetrix Xcel microarray
Microarray
2.1 years ago Adam • 0
1
vote
7
replies
7.7k
views
Oligo RMA normalization : ERROR; return code from pthread_create() is 22
microarray normalization oligo HTA
updated 2.2 years ago by • 0 • written 5.3 years ago by ▴ 10
0
votes
0
replies
630
views
Error in svd(X) when using edge lrt (or odp) function.
edge Microarray longitudinal
2.2 years ago emily • 0
2
votes
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 2.5 years ago by 65k • written 2.5 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 65k • written 2.7 years ago by ▴ 50
17
votes
8
replies
11k
views
remove microarray batch effects using Limma
Microarray
updated 2.7 years ago by • 0 • written 13.6 years ago by ▴ 120
0
votes
1
reply
1.2k
views
Re-normalize microarray dataset in R
microarray quantile expression R Normalization
updated 2.8 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 2.9 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
3
votes
6
replies
4.4k
views
Affymetrix miRNA 4.0 Normalization and Analysis
R Limma microarray miRNA
updated 3.0 years ago by ▴ 10 • written 8.3 years ago by ▴ 90
1
vote
2
replies
1.4k
views
RUV4 for microarrays
RUV4 RUV Microarray
3.1 years ago • updated 3.0 years ago Antonio • 0
50 results • Page 1 of 1
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Comment: Numerical differences in DESeq2 output depending on different design matrix cons by JKim • 0
The 1st model has an interaction term, but the 2nd model doesn't have the interaction term. That makes the difference.
Comment: Ensembl plants at annotationHub? by Daniele • 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by swbarnes2 ★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Comment: DESeq2- Mysterious interaction suppresses DEGs by shaunpeterson • 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Comment: STRINGdb : error with string_db$plot_network() by damian.szk ▴ 80
ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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