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Annotation
•
reset
5
votes
11
replies
4.2k
views
How to annotate gene names for genomic coordinates?
annotation
written 8.9 years ago by
seeker
• 0
0
votes
5
replies
2.0k
views
Normalizing Affy Almac Xcel Array Data from CEL files
Annotation
affy
oligo
ffpe
Annotation
affy
oligo
ffpe
written 10.3 years ago by
Guest User
★ 13k
0
votes
6
replies
334
views
unable to access Annotationhub latest record
DNAMethylation
AnnotationHub
EPICv2manifest
annotation
updated 24 days ago by
Tim Peters
▴ 180 • written 4 weeks ago by
s.malik
• 0
0
votes
1
reply
3.5k
views
Bioconductor version cannot be validated
Bioconductor
Annotation
Ann
updated 7 months ago by
James W. MacDonald
65k • written 7 months ago by
Aytaç
• 0
2
votes
7
replies
2.0k
views
How to generate custom annotation for rat genome rn6 in ChIPQC
ChIPQC
annotation
rn6
updated 4 months ago by
Raghavaram
• 0 • written 3.6 years ago by
Frédéric Crémazy
• 0
3
votes
4
replies
673
views
Questions Trying to Re-create MicroArray Data (GSE97562) (Fig. 2)
MicroRNAArrayData
GSE97562
pd.hugene.1.0.st.v1
Annotation
updated 9 months ago by
James W. MacDonald
65k • written 9 months ago by
rodj5201
• 0
0
votes
1
reply
464
views
Create design matrix for differential methylation analysis
Annotation
annotate
DifferentialMethylation
minfiDataEPIC
updated 7 months ago by
Basti
▴ 780 • written 7 months ago by
titangerd
• 0
1
vote
4
replies
1.6k
views
Problem installing annotation packages AnnotationDbi & BiocFileCache
software error
annotation
written 4.2 years ago by
alan.g.hudson
• 0
0
votes
2
replies
711
views
How to find probe enhancer annotation for Illumina EPIC array?
IlluminaHumanMethylationEPICmanifest
ChAMP
annotation
updated 11 months ago by
James W. MacDonald
65k • written 11 months ago by
Matilda
• 0
2
votes
4
replies
936
views
Use with_go along with other filters in getBM function
Annotation
biomaRt
11 months ago
RuBBiT0
▴ 10
1
vote
0
replies
399
views
News:
Bioconductor 3.18 db0s, OrgDbs, and TxDbs now available
db0
release
Annotation
7 months ago
kayla.interdonato
▴ 160
0
votes
1
reply
966
views
How to get Cytogenetic band for muscles gene by using Biomart or other tools in R
Annotation
biomaRt
ensembldb
written 2.5 years ago by
Lillian
• 0
2
votes
1
reply
211
views
Only positive enrichment score in GSEA
clusterProfiler
annotation
gseGO
gsea
OrgDb
updated 5 weeks ago by
Guido Hooiveld
★ 3.9k • written 6 weeks ago by
enee
▴ 10
0
votes
1
reply
1.4k
views
Doubts regarding Pathview
Annotation
pathview
Annotation
pathview
written 9.8 years ago by
Luo Weijun
★ 1.6k
0
votes
0
replies
169
views
Best method for annotating distal peaks
ChIPSeq
annotation
ChIPpeakAnno
12 weeks ago
nilanjanamani88
• 0
0
votes
4
replies
1.2k
views
BioCann repository index warning on Apple Silicon (Bioc 3.17 / R 4.3)
Annotation
11 months ago
Michael Steinbaugh
▴ 90
16 results • Page
1 of 1
Recent ...
Replies
Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …
Answer: Once again a "Model matrix not full rank"
by
swbarnes2
★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
Gordon Smyth
50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
It is true that goseq isn't available for Bioc 3.19 (as at 4 May 2024). In the meantime, you could consider using the goana() and kegga() …
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
James W. MacDonald
65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
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