Showing : NCBI GEO • reset
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GEOQuery bug, NCBI or package?
geoquery ncbi geo biobase
3.5 years ago cschot3 • 0
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Using LIMMA for differential gene analysis of microarray data
limma differential gene expression ncbi geo affymetrix microarrays
updated 3.5 years ago by ★ 27k • written 3.5 years ago by • 0
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Processing several GSM from GEO database using Barcode and fRMA
frma barcode geneexpression gsm ncbi geo
updated 4.5 years ago by ▴ 830 • written 4.5 years ago by • 0
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Difficulty for analysis of GSE7864
limma microarray bioconductor ncbi geo
updated 5.3 years ago by 45k • written 5.3 years ago by ▴ 10
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2.9k
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GEOquery Fails to Download Series Matrix File
geoquery ncbi geo geo data
5.5 years ago fongchunchan ▴ 30
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1.8k
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NCBI FTP server IP address
NCBI GEO
updated 18 months ago by • 0 • written 6.3 years ago by ▴ 10
6 results • Page 1 of 1
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Comment: edgeR: the F-statistics changed after removing lowly expressed gene by Gordon Smyth 45k
There is nothing to be gained by doing analyses without filtering. We don't recommend it.
Comment: edgeR: the F-statistics changed after removing lowly expressed gene by Pei • 0
Thank you Prof. Smyth! In my case, I found that number of significant genes tend to decrease after filtering when using glmQLFTest but num…
Answer: edgeR: the F-statistics changed after removing lowly expressed gene by Gordon Smyth 45k
glmQLFTest() function is designed to be used after expression filtering. You should apply expression filtering, regardless of whether it re…
Comment: EnrichGO not working with db created from annotationhub by Lucía • 0
I have this, can this be used for GO in R? ``` 115709282 LOC115709282 phenylalanine ammonia-lyase 115699364 LOC115699364 …
Answer: EnrichGO not working with db created from annotationhub by Lucía • 0
Hi, thanks so much for all your replies and running the code and confirming. I have not seen any GO term annotations for Cannabis so far…
Votes
Answer: edgeR: the F-statistics changed after removing lowly expressed gene
Answer: edgeR: the F-statistics changed after removing lowly expressed gene
A: DESeq2: thousands of NA for pvalues?
Answer: Difference between raw counts and featureCounts for DESeq2
A: Differential expression of RNA-seq data using limma and voom()
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Teacher to Gordon Smyth 45k
Scholar to Matthew McCormack ▴ 180
Scholar to jared.andrews07 ▴ 30
Scholar to vanbelj ▴ 10
Scholar to James W. MacDonald 59k
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Wageningen University, Wageningen, the Netherlands, 1 minute ago
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