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interactionset
•
reset
1
vote
12
replies
962
views
How to calculate p value when comparing two sets of DEGs and not applying interaction
DEGcomparison
DESeq2
InteractionSet
pvalue
5 weeks ago • updated 4 weeks ago
paria.alipour
• 0
0
votes
3
replies
594
views
Cannot use findOverlaps with 2 GInteractions objects with different ranges.
InteractionSet
GInteractions
10 weeks ago
Sarah
▴ 10
1
vote
0
replies
365
views
subsetByOverlaps in GenomicInteractions object doesn't work properly?
InteractionSet
subsetByOverlaps
GenomicInteractions
8 months ago
LaureTomas
▴ 10
0
votes
3
replies
722
views
trying to generate an object from a virtual class ("DataFrame")
InteractionSet
BuildReport
14 months ago
martin.grigorov
▴ 10
0
votes
2
replies
955
views
Converting a GInteractions object to a dataframe
InteractionSet
2.7 years ago
noag
• 0
0
votes
1
reply
798
views
Resources to learn about s4 object extension/inheritance, custom print methods, and new operations
S4
Rcpp
InteractionSet
IRanges
Rle
updated 3.8 years ago by
Aaron Lun
★ 28k • written 3.8 years ago by
lklei001
• 0
0
votes
1
reply
795
views
How to load counts from existing count matrices in diffHic package
diffHic
HiC
InteractionSet
updated 3.9 years ago by
Aaron Lun
★ 28k • written 3.9 years ago by
girardot
• 0
0
votes
2
replies
1.2k
views
Visualizing 4c-seq as arc
genomicinteractions
gviz
interactionset
updated 5.3 years ago by
liz.ingsimmons
▴ 140 • written 5.3 years ago by
ferbecneu
• 0
2
votes
1
reply
1.3k
views
Error to rename seqlevels in Granges interactions
interactionset
granges
updated 5.7 years ago by
Aaron Lun
★ 28k • written 5.7 years ago by
Vinicius Henrique da Silva
▴ 40
2
votes
1
reply
1.2k
views
Inflating interactionSets into a contact matrix
diffhic
hic
interactionset
contactmatrix
inflate
updated 6.4 years ago by
Aaron Lun
★ 28k • written 6.4 years ago by
hwick1
▴ 20
1
vote
5
replies
1.3k
views
diffHiC differential HiC analysis starting from Ginteractions object
diffhic
interactionset
7.7 years ago
Vivek.b
▴ 100
2
votes
1
reply
1.0k
views
cluster (only one end overlapping) breakpoints using InteractionSet
InteractionSet
structural variants
updated 7.7 years ago by
Aaron Lun
★ 28k • written 7.7 years ago by
tangming2005
▴ 190
12 results • Page
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Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
by
Michael Love
41k
May be documented by the software you are using? https://github.com/lpantano/DEGreport
Answer: Doing comparison of RNA-seq data using Deseq2
by
Michael Love
41k
Take a look at our workflow, this starts from a beginner's level. You could export from Excel using CSV or TSV, then read into R. htt…
Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Votes
transcript name mapping between human and mouse
transcript name mapping between human and mouse
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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