Showing : MicroarrayData • reset
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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
5
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7
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475
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DEG Filtering
MicroarrayData limma Genefiltering
updated 6 weeks ago by 50k • written 8 weeks ago by • 0
2
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6
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532
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limma: vooma mean-variance trend and data filtration
MicroarrayData limma
9 weeks ago • updated 7 weeks ago Lily Cheang ▴ 10
0
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3
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590
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Is it possible to extract the expression of a single group without making comparisons?
MicroarrayData hta20transcriptcluster.db
updated 8 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 11 months ago by ▴ 10
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2
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771
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Error in getCdfInfo(object) :
MicroarrayData
13 months ago kobra • 0
0
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0
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635
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Aligning Clariom D against reference Genome and transcriptome pipeline
Clariom Align MicroarrayData Alignment Microarray
14 months ago jsharif • 0
2
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1
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540
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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
0
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1
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644
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Micro Array GEO data analysis
GEOquery MicroarrayData Normalization Microarray NanoStringDiff
updated 15 months ago by 65k • written 15 months ago by • 0
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2
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947
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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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573
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2-Way Repeated Measures ANOVA - Affymetrix
AffymetrixChip MicroarrayData Anova
18 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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531
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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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0
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519
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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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968
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the difference between getGEO and getGEOSuppFiles
MicroarrayData
21 months ago Fatemeh • 0
1
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1
reply
636
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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
687
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Compare different cell lines with tissues using limma
limma MicroarrayData Microarray Agilent
updated 22 months ago by 50k • written 22 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 • updated 22 months ago YC • 0
1
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2
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831
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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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790
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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
0
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2
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773
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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
0
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4
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929
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getProbeInfo and exprs return two different dimensions
CELfile MicroarrayData AffymetrixChip
2.1 years ago Haoran • 0
0
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1
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877
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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
695
views
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
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 65k • written 2.6 years ago by • 0
0
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2
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654
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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
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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
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
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
0
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2
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2.1k
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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
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WGCNA - Outliers after creating sample tree
MicroarrayData WGCNA Microarray
3.2 years ago jpwl2 • 0
6
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4
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1.2k
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
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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: Create protein sequences including variants from a VCF file by Yun • 0
This cannot work for a SNV file, since `injectSNPs` need a `SNPlocs` object
Comment: Can log2cpm be used for proteomics data normalization? by Daniel • 0
Thank you for the quick reply and I apologize for it being on the wrong thread but the "post tag" function wasn't working properly.
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Patadù ▴ 10
I have arranged the code again following the other post and also the script you suggested. Now, I managed to install `org.Vdahliae.eg.db`. …
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Patadù ▴ 10
Thanks again Guido, I will try to run the script you have suggested and see if I can install the package. Yes, I have seen this message a…
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Guido Hooiveld ★ 4.0k
FWIW: based on [previous posts][1] it is suggested to install like this: install.packages(pkgs="./org.Vdahliae.eg.db", repos=NULL, typ…
Votes
Comment: How to correctly adjust for gender in edgeR
Create protein sequences including variants from a VCF file
A: DEXSeq design formula
Answer: SGSeq: moving toward diffex from SGSeq analysis
Answer: How to design DEXSeq formula for multiple variables
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