Showing : Affymetrix • reset
3
votes
15
replies
2.7k
views
Are the p-values supposed to be on the order of 10^-120?
limma affy bioconductor affymetrix
updated 9.5 years ago by 50k • written 9.5 years ago by • 0
5
votes
9
replies
4.2k
views
Looking for annotation file for Affymetrix SNP 6.0
copynumber snp affymetrix
8.4 years ago KB ▴ 50
3
votes
8
replies
2.3k
views
Error aroma.affymetrix [affxparser Fusion SDK exception]
affymetrix affxparser
updated 8.4 years ago by ★ 2.4k • written 8.4 years ago by ▴ 40
6
votes
7
replies
3.2k
views
Appropriate pre-processing pipeline for Human Transcriptome Array HTA 2.0 with oligo for DE analysis
oligo affycoretools hta2.0 affymetrix
updated 23 months ago by ▴ 10 • written 7.1 years ago by ▴ 830
0
votes
7
replies
2.0k
views
Annotation of probes from Affymetrix and Illumina platforms in MACQ project ?
Affymetrix Illumina probes microarray annotation package
updated 5.0 years ago by ★ 3.9k • written 5.0 years ago by • 0
2
votes
6
replies
1.6k
views
Appropriate use of the function mroast to find KEGG pathways for differential expression
mroast limma pathway analysis differential gene expression affymetrix
9.1 years ago svlachavas ▴ 830
4
votes
5
replies
2.3k
views
Retrieving probes mapping to gene ID in microarray analysis
microarray affymetrix probeset probe
updated 6.6 years ago by ★ 6.5k • written 6.6 years ago by • 0
6
votes
5
replies
1.8k
views
Limma ebayes returns a list with Affy pd.hugene.2.0.st arrays
ebayes expression affymetrix pd.hugene.2.0.st limma
updated 9.3 years ago by 50k • written 9.3 years ago by ▴ 200
1
vote
5
replies
1.8k
views
Filtering genes with missing Entrez ID using "nsFilter"
nsfilter affymetrix hugene10sttranscriptcluster.db annotation
updated 7.2 years ago by 65k • written 7.2 years ago by • 0
5
votes
5
replies
1.2k
views
Annotation issue while analyzing processed Affymetrix Human Exon 1.0 ST Arrays from Geoquery
affycoretools huex10sttranscriptcluster.db affymetrix Geoquery
updated 4.1 years ago by 65k • written 4.1 years ago by ▴ 830
2
votes
4
replies
2.2k
views
Analysis of Affymetrix Mouse Gene 2.0 ST arrays
affymetrix limma filtering
updated 9.0 years ago by 65k • written 9.0 years ago by • 0
3
votes
4
replies
1.4k
views
AnnotationData package for Affymetrix HT MG-430 PM Array Plate
RNAseq Affymetrix Mouse
updated 3.5 years ago by ★ 3.9k • written 3.5 years ago by • 0
3
votes
3
replies
1.1k
views
Limma: Don't have .CEL Affymatrix Files.
limma affymetrix
updated 5.6 years ago by 50k • written 5.6 years ago by ▴ 10
0
votes
3
replies
689
views
Input files for Affymetrix platform
Affymetrix CEL TXT
updated 4.4 years ago by 65k • written 4.4 years ago by ▴ 50
0
votes
3
replies
1.5k
views
frma: "mogene.2.0.stfrmavecs" availability?? - Gene Barcode 3.0
frma affymetrix barcode
updated 8.3 years ago by ▴ 830 • written 8.3 years ago by • 0
2
votes
2
replies
1.0k
views
Is it possible some statistical evaluation with a few replicates and one control in microarray data analysis in r
r bioconductor affymetrix differential gene expression
updated 9.2 years ago by 65k • written 9.2 years ago by ▴ 830
0
votes
2
replies
1.6k
views
Possible Data integration of molecular data(transcriptomic) and imaging data from the same patients in R
data integration microarray bioconductor affymetrix biomarkers
updated 9.1 years ago by ★ 13k • written 9.1 years ago by ▴ 830
0
votes
2
replies
1.4k
views
Quality control for Affymetrix GeneChip Mouse Gene 2.0 ST Array
qc qualitycontrol arrayqualitymetrics mouse gene st 2.0 affymetrix
updated 6.7 years ago by 65k • written 6.7 years ago by • 0
0
votes
2
replies
1.8k
views
How to convert .CEL file to .VCF file?
vcf cell affymetrix
2.9 years ago jesus • 0
1
vote
2
replies
1.1k
views
Affymetrix analysis of microarray by using Limma
limma MicroarrayData Microarray Affymetrix
23 months ago Mikołaj Mierzejewski • 0
1
vote
2
replies
811
views
Problem with results of Differential expression in Affymetrix microarray
limma MicroarrayData Microarray Affymetrix
23 months ago Mikołaj Mierzejewski • 0
0
votes
1
reply
1.3k
views
Is GCRMA normalization possible with oligo?
oligo pd.moe430a gcrma affymetrix normalization
updated 4.4 years ago by • 0 • written 5.3 years ago by ★ 3.9k
0
votes
1
reply
2.0k
views
RNA degradation plot: why curves are so smooth?
normalization microarray affymetrix
updated 9.3 years ago by 65k • written 9.3 years ago by • 0
0
votes
1
reply
1.2k
views
Filtering out lowly expressed genes on Affymetrix Gene ST arrays
Affymetrix Gene ST limma
8.9 years ago knaxerova ▴ 10
0
votes
1
reply
1.3k
views
extract raw expression values in oligo package
oligo affymetrix raw expression
8.7 years ago queso012 • 0
3
votes
1
reply
1.5k
views
what is fitProbeLevelModel()? doing
affymetrix oligo microarray
updated 8.4 years ago by 65k • written 8.4 years ago by ▴ 20
0
votes
1
reply
1.8k
views
PLIER normalization for Affymetrix GeneChip arrays?
microarray affymetrix oligo RMA normalization
updated 8.4 years ago by 65k • written 8.4 years ago by ▴ 20
0
votes
1
reply
906
views
Affy Mouse Annotation
annotation affymetrix
updated 6.1 years ago by 65k • written 6.1 years ago by • 0
0
votes
1
reply
1.2k
views
Finding/Understanding Affy 6.0 Annotation File
affy affymetrix microarray SNP
5.7 years ago CantExitVIM ▴ 10
0
votes
1
reply
713
views
differential expression analysis of rice
microarray differential expression analysis GPL2025 affymetrix
updated 5.1 years ago by ★ 28k • written 5.1 years ago by • 0
0
votes
1
reply
2.0k
views
How to plot the RMA log2 normalised data from Affymetrix
log2 RMA Affymetrix affy Normalization
updated 3.2 years ago by ★ 3.9k • written 3.2 years ago by • 0
0
votes
1
reply
865
views
Microarray: Build annotation for HT MG430PM affymetrix
AffymetrixChip Microarray affymetrix
updated 3.0 years ago by ★ 3.9k • written 3.0 years ago by • 0
0
votes
0
replies
2.2k
views
MAplot: Binning grid too coarse for current (small) bandwidth
affy affymetrix affymetrics affymetrixchip
9.3 years ago neverstop • 0
0
votes
0
replies
1.4k
views
News: Rebuilding annotation packages for Affymetrix Gene/Exon ST Arrays
affymetrix annotation microarray News
8.9 years ago James W. MacDonald 65k
0
votes
0
replies
1.1k
views
QC for Affymetrix Arrays
affymetrix affymetrix microarrays aroma
7.9 years ago gaiusjaugustus • 0
0
votes
0
replies
977
views
Remove coexpressed gene pair modules using eisa package
isa2 eisa microarray affymetrix
9.0 years ago dhwani.dholakia • 0
36 results • Page 1 of 1
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Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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