Showing : MicroarrayData • reset
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Advice for the analysis of microarray data with limma
Microarray MicroarrayData limma
updated 15 months ago by 50k • written 19 months ago by • 0
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9
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1.5k
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limma analysis when only Cy5 was used
MicroarrayData limma Microarray
3.3 years ago Daniel.Schnell • 0
5
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8
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1.5k
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Can the limma package be applied to Log2 RUV-normalized data?
RUVnormalizeData MicroarrayData limma
updated 5 months ago by • 0 • written 12 months ago by ▴ 10
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8
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1.5k
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Finding differentially expressed genes in a prospective cohort study
limma MicroarrayData Microarray
23 months ago YC • 0
5
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7
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484
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DEG Filtering
MicroarrayData limma Genefiltering
updated 7 weeks ago by 50k • written 8 weeks ago by • 0
2
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6
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556
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limma: vooma mean-variance trend and data filtration
MicroarrayData limma
10 weeks ago • updated 7 weeks ago Lily Cheang ▴ 10
3
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5
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1.7k
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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
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4
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930
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getProbeInfo and exprs return two different dimensions
CELfile MicroarrayData AffymetrixChip
2.2 years ago • updated 2.1 years ago Haoran • 0
6
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4
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1.3k
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Limma outputs different results for same sample?
topTable MicroarrayData ebayes limma Microarray
3.3 years ago snijesh ▴ 20
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3
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596
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Is it possible to extract the expression of a single group without making comparisons?
MicroarrayData hta20transcriptcluster.db
updated 9 months ago by 50k • written 9 months ago by • 0
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3
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Microarray - Illumina Metadata
limma GEO MicroarrayData affy
updated 2.6 years ago by 65k • written 2.6 years ago by • 0
2
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2
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972
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the difference between getGEO and getGEOSuppFiles
MicroarrayData
21 months ago Fatemeh • 0
0
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2
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778
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How to extract probe level intensity after rma() normalization
MicroarrayData AffymetrixChip
updated 2.0 years ago by 65k • written 2.0 years ago by • 0
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2
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793
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Identifying multiple mappings with pd.clariom.d.human
clariomdhumantranscriptcluster.db MicroarrayData Microarray pd.clariom.d.human
2.0 years ago amir.rakhimov.b • 0
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2
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How to exclude outlier (Microarray ) from PCA in R
OutlierD pcaMethods MicroarrayData Microarray
3.1 years ago waiyin0923 • 0
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2
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1.1k
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Affymetrix analysis of microarray by using Limma
limma MicroarrayData Microarray Affymetrix
23 months ago Mikołaj Mierzejewski • 0
1
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2
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237
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Problem with maplot {affy} method when using rma {affy} method output as its input
maplot_function rma_function ExpressionSet MicroarrayData affy
7 weeks ago Mj.A. • 0
1
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2
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835
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Problem with results of Differential expression in Affymetrix microarray
limma MicroarrayData Microarray Affymetrix
23 months ago Mikołaj Mierzejewski • 0
0
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2
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1.7k
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WGCNA - Outliers after creating sample tree
MicroarrayData WGCNA Microarray
3.2 years ago jpwl2 • 0
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2
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655
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Adj. P-value identical and high for all the genes
MicroarrayData
2.7 years ago Adriana • 0
0
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2
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951
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Remove batch effect between microarray data
Microarray DifferentialExpression limma MicroarrayData removebatcheffect
16 months ago dqt • 0
2
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2
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575
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2-Way Repeated Measures ANOVA - Affymetrix
AffymetrixChip MicroarrayData Anova
19 months ago evan.j.williams ▴ 10
1
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2
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773
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Error in getCdfInfo(object) :
MicroarrayData
13 months ago kobra • 0
0
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1
reply
878
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R CODE TO FIND AGGREGATE FOR DUPLICATES
aggregateBioVar DEGseq MicroarrayData
updated 2.5 years ago by 65k • written 2.5 years ago by • 0
0
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1
reply
533
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Finding negative control in the array using R
R MicroarrayData
updated 20 months ago by 65k • written 20 months ago by • 0
0
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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
1
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1
reply
1.2k
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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
1
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1
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1.3k
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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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1
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640
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IS DGE possible with normalized microarray expression data and Limma ?
limma MicroarrayData
updated 22 months ago by 65k • written 22 months ago by • 0
0
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1
reply
696
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Import and Analyze 4 GSE12050_GSM304448.gpr microarrays files
.gpr raw Agilent MicroarrayData import
updated 2.5 years ago by 50k • written 2.5 years ago by • 0
0
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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
2
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1
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542
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Doubts about manipulation and annotation of microarray files deposited at GEO
MicroarrayData Annotation GEOdata
updated 15 months ago by 65k • written 15 months ago by • 0
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0
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637
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Aligning Clariom D against reference Genome and transcriptome pipeline
Clariom Align MicroarrayData Alignment Microarray
14 months ago jsharif • 0
0
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0
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521
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Filtering single-channel Affymetrix probes
filtering probe MicroarrayData
21 months ago Fatemeh • 0
34 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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