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AnnotationHubData
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AnnotationHub data for Mus musculus seems to be missing, while previously it was there
tximeta
AnnotationHub
AnnotationHubData
6 months ago
Thon
• 0
0
votes
0
replies
374
views
Getting the exon co-ordinates and location
exon
AnnotationHubData
11 months ago
mahima.g
• 0
0
votes
2
replies
1.0k
views
How to fix warning in makeTxDbFromGFF() when using Gencode M30 (mouse)?
GenomicFeatures
AnnotationHubData
tximeta
updated 19 months ago by
Michael Love
41k • written 19 months ago by
Pratik Mehta
▴ 10
0
votes
13
replies
2.8k
views
EnrichGO not working with db created from annotationhub
clusterProfiler
AnnotationHubData
GO
updated 23 months ago by
Guido Hooiveld
★ 3.9k • written 23 months ago by
Lucía
▴ 10
3
votes
3
replies
1.1k
views
I can't run PhyloProfile
AnnotationHubData
PhyloProfile
23 months ago
S.t
▴ 10
3
votes
8
replies
2.5k
views
AnnotationForge::makeOrgPackage GO Ids mistake
AnnotationHubData
AnnotationForge
2.0 years ago • updated 24 months ago
Saber_J
▴ 10
0
votes
1
reply
623
views
a BioC/R package that display the genome sequence/ mRNA exons/protein domains
AnnotationHubData
updated 3.4 years ago by
Kevin Blighe
★ 3.9k • written 3.4 years ago by
Bogdan
▴ 670
7 results • Page
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Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR)
by
Michael Love
41k
> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …
Comment: Trying to use enrichGO
by
fernanda.backsouza
▴ 10
With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.
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.
Answer: 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…
Votes
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
C: when to apply quantile normalization with voom in limma/voom framework with RNA-
A: How to know if I should use voomWithQualityWeights() or not?
A: Weird results (ribosomal proteins / Y-linked genes) in limma/voom
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