Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
interactionset
•
reset
1
vote
12
replies
1.0k
views
How to calculate p value when comparing two sets of DEGs and not applying interaction
DEGcomparison
DESeq2
InteractionSet
pvalue
9 weeks ago • updated 8 weeks ago
paria.alipour
• 0
0
votes
3
replies
644
views
Cannot use findOverlaps with 2 GInteractions objects with different ranges.
InteractionSet
GInteractions
3 months ago
Sarah
▴ 10
1
vote
0
replies
397
views
subsetByOverlaps in GenomicInteractions object doesn't work properly?
InteractionSet
subsetByOverlaps
GenomicInteractions
9 months ago
LaureTomas
▴ 10
0
votes
3
replies
754
views
trying to generate an object from a virtual class ("DataFrame")
InteractionSet
BuildReport
15 months ago
martin.grigorov
▴ 10
0
votes
2
replies
990
views
Converting a GInteractions object to a dataframe
InteractionSet
2.8 years ago
noag
• 0
0
votes
1
reply
830
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
0
votes
1
reply
823
views
How to load counts from existing count matrices in diffHic package
diffHic
HiC
InteractionSet
updated 4.0 years ago by
Aaron Lun
★ 28k • written 4.0 years ago by
girardot
• 0
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
2
votes
1
reply
1.3k
views
Error to rename seqlevels in Granges interactions
interactionset
granges
updated 5.8 years ago by
Aaron Lun
★ 28k • written 5.8 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 6.5 years ago by
Aaron Lun
★ 28k • written 6.5 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
1 of 1
Recent ...
Replies
Comment: Reproducibility issue with scran together with lapply and BiocParallel
by
ATpoint
★ 4.0k
Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
Answer: Reproducibility issue with scran together with lapply and BiocParallel
by
Aaron Lun
★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
Comment: DESeq2 output used for PCA plot on R studio
by
Aaliya
• 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Votes
C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
Awards
• All
Supporter
to
JKim
• 0
Popular Question
to
Gordon Smyth
50k
Popular Question
to
Chris
• 0
Supporter
to
Jonathan
▴ 10
Popular Question
to
Bine
▴ 40
Locations
• All
United Kingdom,
just now
UPF, Barcelona, Spain,
3 minutes ago
India,
6 minutes ago
Germany,
12 minutes ago
Germany,
15 minutes ago
Traffic: 862 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6