Showing : probe • reset
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globaltest question
Pathways probe affy Pathways probe affy
written 17.6 years ago by ▴ 30
0
votes
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1.6k
views
limma: decideTests
limma probe affy
16.3 years ago • updated 15 months ago Gordon Smyth 50k
0
votes
2
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6.2k
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log transform in RMA normalization
Normalization probe Normalization probe
updated 20 months ago by ▴ 20 • written 11.3 years ago by ▴ 440
0
votes
0
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497
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Filtering single-channel Affymetrix probes
filtering probe MicroarrayData
20 months ago Fatemeh • 0
0
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1
reply
1.4k
views
filtering on variance
probe affy probe affy
updated 3.0 years ago by 50k • written 16.4 years ago by ▴ 90
0
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0
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646
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Probe Design questions
probe affy
3.6 years ago henry1995910343 • 0
4
votes
10
replies
2.5k
views
how to analyze WGCNA results?
cancer probe deseq2 annotation normalization
updated 3.9 years ago by ★ 3.9k • written 3.9 years ago by ▴ 10
0
votes
8
replies
3.9k
views
Combining 2 datasets from 2 different RNAseq experiments
deseq2 normalization probe
updated 4.1 years ago by 41k • written 4.1 years ago by • 0
0
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0
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448
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Program to calculate genetic distances with long sequences
probe go
4.2 years ago antoniorevail • 0
0
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5
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1.1k
views
Does anyone have experience using the massiR package?
massiR microarray R probe
4.6 years ago Steve Lowe ▴ 30
0
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0
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566
views
massiR Extracting and Plotting Y Chr Probe Data
probe microarray
4.6 years ago Steve Lowe ▴ 30
0
votes
1
reply
749
views
Determining survival correlation among probes
annotation probe microarray
4.7 years ago sbrackett007 • 0
0
votes
4
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1.1k
views
Cannot down load the "org.Hs.eg.db" completely
software error probe
updated 4.9 years ago by 25k • written 4.9 years ago by • 0
2
votes
4
replies
1.2k
views
SCAN.UPC : lost too many samples from GSE (BrainArray + ConvThreshold)
SCAN.UPC probe normalization GEOdata cancer
5.0 years ago s.goncalvesclaro ▴ 10
0
votes
2
replies
2.1k
views
liftover probe annotation from hg19 to hg38 for methylation array data using minfi (EPIC methylation array data)
annotation probe software error EPIC methylation array
5.1 years ago brendan.miller • 0
1
vote
3
replies
730
views
I can't install the package "matchprobes"
software error probe
updated 5.2 years ago by 65k • written 5.2 years ago by • 0
0
votes
0
replies
706
views
How to merging multiple GSEs with different GPLs?
microarray probe R
5.2 years ago maryam.sabet • 0
0
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1
reply
1.1k
views
MCLUST: finding the best number of Gaussian components to fit my data
software error microarray probe annotation
updated 5.2 years ago by 41k • written 5.2 years ago by • 0
0
votes
0
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1.1k
views
ath1121501probe_1.0 error (was GCRMA missing value error on ATH1 chip)
probe affy probe affy
updated 5.3 years ago by 0 • written 20.2 years ago by ▴ 940
0
votes
3
replies
4.1k
views
Use probesets with highest baseline expression for differential gene
Annotation probe limma
12.2 years ago • updated 5.6 years ago Gordon Smyth 50k
1
vote
2
replies
954
views
What to do with microarray probes that catch multiple genes?
affymetrix microarrays microarray probe statistics
updated 5.7 years ago by 65k • written 5.7 years ago by • 0
0
votes
2
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1.8k
views
[ComBat] ComBat outputting NAs with Large Batches - Switch to Log Likelihood
probe probe
updated 6.1 years ago by • 0 • written 11.4 years ago by ▴ 10
0
votes
0
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1.2k
views
Probe annotations for ABI Human Genome Survey V2 microarray using Oracle
annotation probe microarray abi human genome survey v2 Oracle
6.1 years ago judemtaylor • 0
1
vote
3
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2.1k
views
GO terms: Annotation for HumanMethylation450
Annotation GO probe Annotation GO probe
updated 6.1 years ago by • 0 • written 11.1 years ago by ▴ 970
0
votes
1
reply
974
views
index of probes in Illumina Infinium MethylationEPIC BeadChip
probe
6.3 years ago mcarmel • 0
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
0
votes
1
reply
1.2k
views
Multiple samples on the same graph
Pathview probe
updated 6.8 years ago by ★ 1.6k • written 6.8 years ago by • 0
0
votes
1
reply
881
views
probe set-gene relation
probe geneid probeset
updated 7.1 years ago by 65k • written 7.1 years ago by • 0
0
votes
8
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1.9k
views
raw probe set expression data and masking questions
Normalization Cancer probe affy PROcess Normalization Cancer probe affy PROcess
updated 7.1 years ago by ▴ 40 • written 17.6 years ago by ▴ 20
1
vote
6
replies
1.6k
views
Remove a list of specific probes from an HTAFeatureSet
pd.clariom.d.human affy probe
updated 7.1 years ago by 65k • written 7.1 years ago by ▴ 40
1
vote
5
replies
1.1k
views
Filter out ranges by number of probes
probe ranges
updated 7.1 years ago by ★ 6.5k • written 7.2 years ago by ▴ 30
0
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0
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1.1k
views
removing probes representing in a certain beads
minfi probe preprocessing
7.2 years ago niutster • 0
0
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4
replies
1.8k
views
minfi probe removal
minfi probe
updated 7.2 years ago by 65k • written 7.2 years ago by • 0
3
votes
4
replies
5.1k
views
LIMMA and Agilent single color
Annotation probe limma agilent
13.4 years ago • updated 7.3 years ago Gordon Smyth 50k
0
votes
1
reply
1.8k
views
LIMMA and Agilent single color
probe limma probe limma
updated 7.3 years ago by 50k • written 13.4 years ago by ▴ 60
1
vote
4
replies
2.0k
views
How to install old GenomicRanges 1.14.4 package ?
bioconductor R cancer probe deseq2
updated 7.9 years ago by ▴ 10 • written 7.9 years ago by • 0
0
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1
reply
1.4k
views
'could not find function "R (>= 2.1"' while trying https://bioconductor.org/packages/3.2/bioc, trying https://bioconductor.org/packages/3.1/bioc …
cancer probe microarray
updated 8.0 years ago by 25k • written 8.0 years ago by • 0
0
votes
1
reply
1.3k
views
Importing and Extracting Annotation
annotation zebrafish probe
updated 8.0 years ago by 65k • written 8.0 years ago by • 0
2
votes
3
replies
1.8k
views
i need AGI code as my probset
affy cdf probe
8.4 years ago • updated 8.2 years ago Angel ▴ 40
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5
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1.7k
views
"oligo" package: probenames/probeinfo different from expr-set (read.cellfles): miRNA 4.0 (affy)
microarray probe annotation affy
8.2 years ago dietmar.pils • 0
0
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0
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1.2k
views
Help for affy
affy process probe
8.2 years ago weizhong_2007 • 0
0
votes
3
replies
11k
views
How to combine expression values of multiple probes for one gene
probe convert geneexpression onechannelgui
updated 8.8 years ago by ▴ 830 • written 8.8 years ago by ▴ 10
1
vote
4
replies
1.4k
views
mutually add a tab in the beggining of the header to make it a valid RMA format
software error probe affy RMA
8.8 years ago Angel ▴ 40
2
votes
2
replies
2.5k
views
Illumina 450k Annotation Definitions/Articles: How was "Enhancer" status determined?
probe annotation illimina 450k methylation minfi methylation
8.8 years ago metamaden ▴ 10
0
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5
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5.4k
views
How to do Affy ST array analysis
Annotation Normalization hgu133a probe affy oligo Annotation Normalization hgu133a probe
updated 8.9 years ago by • 0 • written 10.0 years ago by ★ 13k
0
votes
1
reply
1.5k
views
simpleaffy segmentation fault
Survival probe genefilter affy affyio Survival probe genefilter affy affyio
updated 8.9 years ago by • 0 • written 17.3 years ago by ▴ 170
0
votes
2
replies
1.1k
views
difficulty in mapping gene names to probes coordinates in a celfile
microarray probe
updated 9.1 years ago by 65k • written 9.1 years ago by • 0
0
votes
2
replies
1.6k
views
Affymetrix file with probe set id
probe affy PROcess probe affy PROcess
updated 9.1 years ago by • 0 • written 19.6 years ago by ▴ 600
0
votes
3
replies
2.6k
views
filtering out probes with no gene symbol from expressionSet
probe filter subset gene symbol affy
9.1 years ago alakatos ▴ 130
1
vote
1
reply
1.8k
views
Coercion of MethyLumiSet to MethyLumiR changes raw methylation values?
Normalization probe lumi Normalization probe lumi
updated 9.2 years ago by • 0 • written 10.1 years ago by ▴ 20
50 results • Page 1 of 1
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Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k
Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…
Comment: get BM error by James W. MacDonald 65k
I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…
Comment: get BM error by Fara • 0
Thank you for your response. The primary reason for translating Ensembl IDs into Entrez Gene IDs is to perform KEGG (Kyoto Encyclopedia of…
Comment: Error for AnnotationForge makeOrgPackageFromNCBI function by James W. MacDonald 65k
That's weird. I don't have any problem at all generating the `OrgDb` on my box. How big is the gene2pubmed.gz file? I get this: ``` gzip -…
Votes
Answer: get BM error
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
Comment: Different Shrunk Log2FC according with reference
Reproducibility issue with scran together with lapply and BiocParallel
C: SGSeq: moving toward diffex from SGSeq analysis
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