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Grange
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0
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Error in Medips MEDIPS.CpGenrich()
software error
Grange
RangedData
4.3 years ago
mawusse.agbessi
• 0
2
votes
0
replies
819
views
SOLVED. finding distance to nearest neighbour (non-self) within a list in GenomicRanges
GenomicRanges
GenomicFeatures
grange
distanceToNearest
R
4.6 years ago
rmash
▴ 20
0
votes
1
reply
619
views
Multi-sample Heatmap from GRange
GRange
updated 5.5 years ago by
James W. MacDonald
66k • written 5.5 years ago by
Danny
• 0
0
votes
3
replies
2.5k
views
Selecting columns form a list of grange objects
r
granges
grange
5.7 years ago
g.k
• 0
1
vote
3
replies
983
views
GRange and bam files
bioconductor
Grange
6.1 years ago
Merlin
▴ 10
0
votes
1
reply
947
views
Detect Sites with Minimum Gap in GRanges Object
R
genomicranges
granges
grange
6.2 years ago
g.k
• 0
1
vote
2
replies
1.4k
views
Detecting Overlaps within Grange Object
r
grange
granges
iranges
updated 6.2 years ago by
Michael Lawrence
★ 11k • written 6.2 years ago by
g.k
• 0
3
votes
4
replies
5.3k
views
GenomicRanges: Take union of GRanges and keep metadata?
GRange
genomicranges
updated 7.8 years ago by
Martin Morgan
25k • written 7.8 years ago by
endrebak85
▴ 40
1
vote
2
replies
2.4k
views
Extract GRanges for gene data frame
GRange
updated 7.8 years ago by
Martin Morgan
25k • written 7.8 years ago by
mdeea123
▴ 10
9
votes
21
replies
11k
views
annotate GRanges with upstream or downstream nearest gene
GRange
genomicranges
genomicfeatures
updated 8.4 years ago by
Ou, Jianhong
★ 1.3k • written 8.4 years ago by
tangming2005
▴ 190
0
votes
1
reply
1.0k
views
summarizeOverlaps on partial BAM file?
GenomicFeatures
GRange
Rsamtools
updated 9.4 years ago by
Valerie Obenchain
★ 6.8k • written 9.4 years ago by
cidster12
• 0
4
votes
2
replies
1.3k
views
about INCLUSIVE INTERSECTION of GRANGES
Grange
9.5 years ago
Bogdan
▴ 670
12 results • Page
1 of 1
Recent ...
Replies
Comment: gds in GEOmetadb 2023-06-26 version is empty
by
Frederico Moraes Ferreira
▴ 100
Try axel -n 20 https://gbnci.cancer.gov/geo/GEOmetadb.sqlite.gz
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
James W. MacDonald
66k
The default for `enrichGO` is to subset to those with a p-value<0.05. You don't adjust that default argument, so you shouldn't have any GO …
Answer: In a 3 group DEG analysis with three batches, can I use 1 group in all three bat
by
Michael Love
42k
You can compare A and C thanks to the sharing of samples from B across 1, 2 and 3.
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
adripel
• 0
In the enrichGO results we have significant and non-significant enriched terms that are displayed. So why would an enriched term (significa…
Answer: Design formula, numeric contrast, and lfcshrink in deseq2
by
Michael Love
42k
For questions about how to construct the correct contrasts correspond to particular hypotheses, I recommend consulting with a local statist…
Votes
Comment: Most enriched pathway is not expressed when modifying universe parameter
Time-course, comparison of two groups
Answer: Behaviour of featureCounts when quantifying multi-mapping reads
Answer: GESA with certain gene list returns no result with human genom, but many result
Answer: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
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