Showing : MicroarrayData • reset
1
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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
8 weeks ago Mj.A. • 0
5
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7
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497
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DEG Filtering
MicroarrayData limma Genefiltering
updated 7 weeks ago by 50k • written 9 weeks ago by • 0
2
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6
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582
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limma: vooma mean-variance trend and data filtration
MicroarrayData limma
10 weeks ago • updated 8 weeks ago Lily Cheang ▴ 10
0
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3
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605
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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
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
1
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2
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778
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Error in getCdfInfo(object) :
MicroarrayData
13 months ago kobra • 0
0
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0
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642
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Aligning Clariom D against reference Genome and transcriptome pipeline
Clariom Align MicroarrayData Alignment Microarray
15 months ago jsharif • 0
2
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1
reply
546
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Doubts about manipulation and annotation of microarray files deposited at GEO
MicroarrayData Annotation GEOdata
updated 15 months ago by 66k • written 15 months ago by • 0
0
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1
reply
650
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Micro Array GEO data analysis
GEOquery MicroarrayData Normalization Microarray NanoStringDiff
updated 15 months ago by 66k • written 15 months ago by • 0
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2
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955
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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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576
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2-Way Repeated Measures ANOVA - Affymetrix
AffymetrixChip MicroarrayData Anova
19 months ago evan.j.williams ▴ 10
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17
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2.3k
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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
0
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1
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534
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Finding negative control in the array using R
R MicroarrayData
updated 20 months ago by 66k • written 20 months ago by • 0
0
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0
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527
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Filtering single-channel Affymetrix probes
filtering probe MicroarrayData
21 months ago Fatemeh • 0
2
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2
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981
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the difference between getGEO and getGEOSuppFiles
MicroarrayData
21 months ago Fatemeh • 0
1
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1
reply
642
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IS DGE possible with normalized microarray expression data and Limma ?
limma MicroarrayData
updated 22 months ago by 66k • written 22 months ago by • 0
0
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1
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694
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Compare different cell lines with tissues using limma
limma MicroarrayData Microarray Agilent
updated 23 months ago by 50k • written 23 months ago by • 0
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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
1
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2
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840
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Problem with results of Differential expression in Affymetrix microarray
limma MicroarrayData Microarray Affymetrix
23 months ago Mikołaj Mierzejewski • 0
1
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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
0
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2
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797
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Identifying multiple mappings with pd.clariom.d.human
clariomdhumantranscriptcluster.db MicroarrayData Microarray pd.clariom.d.human
2.1 years ago • updated 2.0 years ago amir.rakhimov.b • 0
0
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2
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785
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How to extract probe level intensity after rma() normalization
MicroarrayData AffymetrixChip
updated 2.1 years ago by 66k • written 2.1 years ago by • 0
0
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4
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934
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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
0
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1
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886
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R CODE TO FIND AGGREGATE FOR DUPLICATES
aggregateBioVar DEGseq MicroarrayData
updated 2.5 years ago by 66k • written 2.5 years ago by • 0
0
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1
reply
701
views
Import and Analyze 4 GSE12050_GSM304448.gpr microarrays files
.gpr raw Agilent MicroarrayData import
updated 2.6 years ago by 50k • written 2.6 years ago by • 0
1
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3
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1.2k
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Microarray - Illumina Metadata
limma GEO MicroarrayData affy
updated 2.6 years ago by 66k • written 2.7 years ago by • 0
0
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2
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660
views
Adj. P-value identical and high for all the genes
MicroarrayData
2.7 years ago Adriana • 0
1
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1
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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
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 3.0 years ago by • 0
1
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1
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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
0
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2
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2.1k
views
How to exclude outlier (Microarray ) from PCA in R
OutlierD pcaMethods MicroarrayData Microarray
3.1 years ago waiyin0923 • 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 • updated 3.2 years ago jpwl2 • 0
6
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4
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1.3k
views
Limma outputs different results for same sample?
topTable MicroarrayData ebayes limma Microarray
3.3 years ago snijesh ▴ 20
3
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9
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1.5k
views
limma analysis when only Cy5 was used
MicroarrayData limma Microarray
3.3 years ago Daniel.Schnell • 0
34 results • Page 1 of 1
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Comment: recount3 problem downloading data from source sra by PABLO ANTONIO • 0
Hello Leonardo, Thanks for commenting on possible solutions. I noticed comparing your session info that I was using the previous version o…
Comment: seqlevelsStyle() not working by websterdelacruz2087055 • 0
Specify the new URL new_url <- "https://hgdownload2.cse.ucsc.edu/goldenPath/hg19/database/chromInfo.txt.gz" Use the new URL to download th…
Comment: SGSeq: moving toward diffex from SGSeq analysis by Sara • 0
Yes, thank you. I have another error now, may you please guide me. here is the code that I used till using vep: ```r # bam_path <- "~/pat…
Comment: slingshot: error with plot3d.SlingshotDataSet by Happiness • 0
Hi please i am encountering similar issue how did you fix it. Here is the code: ## Run Slingshot p3.neuron.sds <- slingshot(Embeddings(…
Answer: Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data by mohammedtoufiq91 ▴ 10
https://support.bioconductor.org/u/5106/ thank you very much.
Votes
Answer: Multiple factor DSEq2 result generates weird volcano plot
DESeq2 for single cell pseudobulk processing
Simultaneously adding two different covariates in the model gives error in DESeq2.
How to correct for age, sex, etc. from an RNA-seq data in DESeq2.
Answer: recount3 problem downloading data from source sra
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