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interactionset
•
reset
1
vote
12
replies
1.1k
views
How to calculate p value when comparing two sets of DEGs and not applying interaction
DEGcomparison
DESeq2
InteractionSet
pvalue
12 weeks ago • updated 11 weeks ago
paria.alipour
• 0
1
vote
5
replies
1.3k
views
diffHiC differential HiC analysis starting from Ginteractions object
diffhic
interactionset
7.8 years ago
Vivek.b
▴ 100
0
votes
3
replies
671
views
Cannot use findOverlaps with 2 GInteractions objects with different ranges.
InteractionSet
GInteractions
4 months ago
Sarah
▴ 10
0
votes
3
replies
795
views
trying to generate an object from a virtual class ("DataFrame")
InteractionSet
BuildReport
15 months ago
martin.grigorov
▴ 10
0
votes
2
replies
1.2k
views
Visualizing 4c-seq as arc
genomicinteractions
gviz
interactionset
updated 5.4 years ago by
liz.ingsimmons
▴ 140 • written 5.4 years ago by
ferbecneu
• 0
0
votes
2
replies
1.0k
views
Converting a GInteractions object to a dataframe
InteractionSet
2.8 years ago
noag
• 0
0
votes
1
reply
861
views
Resources to learn about s4 object extension/inheritance, custom print methods, and new operations
S4
Rcpp
InteractionSet
IRanges
Rle
updated 3.9 years ago by
Aaron Lun
★ 28k • written 3.9 years ago by
lklei001
• 0
2
votes
1
reply
1.2k
views
Inflating interactionSets into a contact matrix
diffhic
hic
interactionset
contactmatrix
inflate
updated 6.5 years ago by
Aaron Lun
★ 28k • written 6.5 years ago by
hwick1
▴ 20
2
votes
1
reply
1.3k
views
Error to rename seqlevels in Granges interactions
interactionset
granges
updated 5.9 years ago by
Aaron Lun
★ 28k • written 5.9 years ago by
Vinicius Henrique da Silva
▴ 40
0
votes
1
reply
845
views
How to load counts from existing count matrices in diffHic package
diffHic
HiC
InteractionSet
updated 4.1 years ago by
Aaron Lun
★ 28k • written 4.1 years ago by
girardot
• 0
2
votes
1
reply
1.1k
views
cluster (only one end overlapping) breakpoints using InteractionSet
InteractionSet
structural variants
updated 7.8 years ago by
Aaron Lun
★ 28k • written 7.8 years ago by
tangming2005
▴ 190
1
vote
0
replies
443
views
subsetByOverlaps in GenomicInteractions object doesn't work properly?
InteractionSet
subsetByOverlaps
GenomicInteractions
10 months ago
LaureTomas
▴ 10
12 results • Page
1 of 1
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Replies
Comment: Ensembl plants at annotationHub?
by
Daniele
• 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
swbarnes2
★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Comment: DESeq2- Mysterious interaction suppresses DEGs
by
shaunpeterson
• 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Comment: STRINGdb : error with string_db$plot_network()
by
damian.szk
▴ 80
ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …
Comment: STRINGdb : error with string_db$plot_network()
by
ninidea
• 0
> Does the vignette produce the same error? No. Anyway, I finally solved the problem. I don't know why, but I removed: protocol='http' fr…
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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