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Grange
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0
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537
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Error in Medips MEDIPS.CpGenrich()
software error
Grange
RangedData
4.2 years ago
mawusse.agbessi
• 0
2
votes
0
replies
794
views
SOLVED. finding distance to nearest neighbour (non-self) within a list in GenomicRanges
GenomicRanges
GenomicFeatures
grange
distanceToNearest
R
4.5 years ago
rmash
▴ 20
0
votes
1
reply
603
views
Multi-sample Heatmap from GRange
GRange
updated 5.4 years ago by
James W. MacDonald
65k • written 5.4 years ago by
Danny
• 0
0
votes
3
replies
2.4k
views
Selecting columns form a list of grange objects
r
granges
grange
5.6 years ago
g.k
• 0
1
vote
3
replies
959
views
GRange and bam files
bioconductor
Grange
6.0 years ago
Merlin
▴ 10
0
votes
1
reply
929
views
Detect Sites with Minimum Gap in GRanges Object
R
genomicranges
granges
grange
6.1 years ago
g.k
• 0
1
vote
2
replies
1.4k
views
Detecting Overlaps within Grange Object
r
grange
granges
iranges
updated 6.1 years ago by
Michael Lawrence
★ 11k • written 6.1 years ago by
g.k
• 0
3
votes
4
replies
5.2k
views
GenomicRanges: Take union of GRanges and keep metadata?
GRange
genomicranges
updated 7.6 years ago by
Martin Morgan
25k • written 7.6 years ago by
endrebak85
▴ 40
1
vote
2
replies
2.4k
views
Extract GRanges for gene data frame
GRange
updated 7.7 years ago by
Martin Morgan
25k • written 7.7 years ago by
mdeea123
▴ 10
9
votes
21
replies
11k
views
annotate GRanges with upstream or downstream nearest gene
GRange
genomicranges
genomicfeatures
updated 8.3 years ago by
Ou, Jianhong
★ 1.3k • written 8.3 years ago by
tangming2005
▴ 190
0
votes
1
reply
1.0k
views
summarizeOverlaps on partial BAM file?
GenomicFeatures
GRange
Rsamtools
updated 9.3 years ago by
Valerie Obenchain
★ 6.8k • written 9.3 years ago by
cidster12
• 0
4
votes
2
replies
1.3k
views
about INCLUSIVE INTERSECTION of GRANGES
Grange
9.4 years ago
Bogdan
▴ 670
12 results • Page
1 of 1
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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. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
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…
Comment: CombineArrays for EPIC and EPIC V2
by
Kim
• 0
Thank you Tim, this is a great help in getting me started!
Comment: Too many significant genes when integrating gtex and tcga
by
Michael Love
41k
Yes, this was one of the aspects we highlighted in the 2014 paper, and it's also in the workflow. Check these places first. Also take a st…
Votes
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
A: Print Differentially Expressed Exons From Dexseq Results
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