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 :
SomaticSignatures
•
reset
0
votes
0
replies
64
views
SomaticSignatures normalization for trinucleotide motifs in reference genome
Normalization
SomaticSignatures
10 days ago
vasily.dobrovolsky
• 0
0
votes
4
replies
1.2k
views
Error of read in large vcf file using readVcf
SomaticSignatures
VariantAnnotation
updated 2.4 years ago by
James W. MacDonald
64k • written 2.4 years ago by
xiw588
• 0
1
vote
7
replies
939
views
Help creating VRange object
vcf
somaticSignatures
Vrange
updated 4.6 years ago by
Julian Gehring
★ 1.3k • written 4.6 years ago by
maisapinheiro12
• 0
0
votes
0
replies
607
views
SomaticSignatures package: how can I get probability of certain mutation type within a signature?
somaticsignatures
5.0 years ago
spr
▴ 10
0
votes
7
replies
2.7k
views
nmf function not working
somaticsignatures
NMF
updated 5.1 years ago by
Xin
• 0 • written 5.4 years ago by
aslam.mohammed398
• 0
0
votes
5
replies
1.4k
views
Somatic Signature only SNV supported
somaticsignatures
5.1 years ago
TRASA
• 0
0
votes
0
replies
615
views
Formal class VRanges versus Large VRanges
somaticsignatures
vranges
readvcfasvranges
5.3 years ago
guillaume.dachy
• 0
0
votes
1
reply
918
views
SomaticSignatures for Bioconductor 3.6 (R 3.4.3) depends on NMF, which is not available for R 3.4.3
NMF
somaticsignatures
R 3.4.3
updated 5.7 years ago by
shepherl
3.6k • written 5.7 years ago by
samuel.fux
• 0
0
votes
6
replies
2.5k
views
Somaticsignature NMF problem
somaticsignatures
NMF
updated 6.1 years ago by
grimmmmer
• 0 • written 6.8 years ago by
ns
• 0
1
vote
2
replies
1.5k
views
Trouble while concatenating VRanges object ()
somaticsignatures
somaticsignatures package
readvcfasvranges
vranges
6.3 years ago • updated 6.2 years ago
guillaume.dachy
• 0
0
votes
4
replies
1.7k
views
SomaticSignatures: Compare my signatures with published COSMIC datasets
somaticsignatures
6.3 years ago
john.alexander
• 0
2
votes
3
replies
1.1k
views
SomaticSignatures package : motifMatrix function trouble
somaticsignatures
6.4 years ago • updated 6.3 years ago
guillaume.dachy
• 0
0
votes
1
reply
910
views
plotMutationSpectrum Colour By Patient with Multiple Samples
plotMutationSpectrum
somaticsignatures
somaticsignatures package
updated 6.4 years ago by
Julian Gehring
★ 1.3k • written 6.4 years ago by
bruce.moran
▴ 30
0
votes
5
replies
1.5k
views
SomaticSignatures: Transcription Factor Specific Mutation Signature Enrichment
somaticsignatures
somaticsignatures package
6.6 years ago
morovatunc
• 0
0
votes
1
reply
949
views
Questions about SomaticSignatures packages
SomaticSignatures
updated 6.8 years ago by
Wolfgang Huber
13k • written 6.8 years ago by
zzsu1999
• 0
0
votes
2
replies
1.1k
views
SomaticSignature - Significant signature
somaticsignatures
7.1 years ago
ksivapra
• 0
0
votes
1
reply
1.3k
views
How to compare SomaticSignatures package profiles with signatures listed by the Sanger Institute
somaticsignatures
updated 7.1 years ago by
Julian Gehring
★ 1.3k • written 7.1 years ago by
jonessara770
▴ 10
2
votes
4
replies
1.2k
views
SomaticSignatures plotSamples error
somaticsignatures
plotSamples
7.2 years ago
ns
• 0
3
votes
4
replies
3.2k
views
Error while running SomaticSignatures
somaticsignatures
updated 7.3 years ago by
Andy Lynch
▴ 120 • written 7.3 years ago by
poojitha.ojamies
• 0
0
votes
3
replies
932
views
Observing composition of somatic signatures as barcharts
somaticsignatures
7.3 years ago
arsala521
▴ 10
0
votes
2
replies
932
views
Number of tumor samples and analysis by SomaticSignature Package
somaticsignatures
updated 7.4 years ago by
Julian Gehring
★ 1.3k • written 7.4 years ago by
arsala521
▴ 10
0
votes
1
reply
875
views
Input files for somaticSignature
somaticsignatures
updated 7.4 years ago by
Julian Gehring
★ 1.3k • written 7.4 years ago by
poojitha.ojamies
• 0
1
vote
2
replies
975
views
motifMatrix input object type, confused VRange and GRange
somaticsignatures
updated 7.4 years ago by
Julian Gehring
★ 1.3k • written 7.4 years ago by
solo7773
▴ 10
3
votes
8
replies
1.7k
views
Vcf to VRanges conversion error: ["incorrect number of dimensions"]
variantannotation
somaticsignatures
updated 7.4 years ago by
Michael Lawrence
11k • written 7.4 years ago by
maria.vila
• 0
3
votes
3
replies
1.2k
views
makeVRangesFromGRanges throws coercing "factor" to "NA" error
r packages
somaticsignatures
variantannotation
updated 7.4 years ago by
Martin Morgan
25k • written 7.4 years ago by
solo7773
▴ 10
0
votes
3
replies
1.1k
views
Sequence Context of Somatic Variants
somaticsignatures
mutation context
updated 7.4 years ago by
Julian Gehring
★ 1.3k • written 7.4 years ago by
arsala521
▴ 10
1
vote
4
replies
1.6k
views
Converting VCF to VRanges
somaticsignatures
vranges
updated 7.4 years ago by
Julian Gehring
★ 1.3k • written 7.4 years ago by
arsala521
▴ 10
2
votes
8
replies
1.4k
views
Regarding Somatic Mutation Signature
somaticsignatures
updated 7.6 years ago by
Julian Gehring
★ 1.3k • written 7.6 years ago by
sj1
▴ 10
0
votes
5
replies
1.6k
views
Install SomaticSignatures (ERROR: compilation failed for package 'RBGL')
somaticsignatures
RGBL
7.6 years ago
user31888
▴ 30
0
votes
8
replies
1.5k
views
Regarding somatic signature package
somaticsignatures
updated 7.6 years ago by
Julian Gehring
★ 1.3k • written 7.6 years ago by
sj1
▴ 10
2
votes
2
replies
908
views
geom problem with SomaticSignatures plotRainfall
SomaticSignatures
updated 7.6 years ago by
Julian Gehring
★ 1.3k • written 7.6 years ago by
fourie.joubert
▴ 20
1
vote
1
reply
972
views
Contribution of Signature in each sample
mutational signature
somaticSignatures
updated 7.6 years ago by
Julian Gehring
★ 1.3k • written 7.6 years ago by
ksivapra
• 0
0
votes
1
reply
1.0k
views
Fitting somatic signatures to alexandrovs's
somaticsignatures
somaticsignatures mutationcontext
updated 7.6 years ago by
Julian Gehring
★ 1.3k • written 7.6 years ago by
jolligoodfellow
• 0
1
vote
2
replies
1.3k
views
Combining GRange/VRange objects
granges
vranges
readvcfasvranges
somaticsignatures
updated 7.7 years ago by
Michael Lawrence
11k • written 7.7 years ago by
jpluta26
• 0
1
vote
2
replies
1.1k
views
SomaticSignatures - Getting Started & Trouble Shooting
software error
somaticsignatures
somaticsignatures mutationcontext
7.7 years ago
jpluta26
• 0
0
votes
1
reply
1.4k
views
mutational signatures problems
bsgenome
readvcf
tcga
annotation
somaticsignatures
updated 7.7 years ago by
Julian Gehring
★ 1.3k • written 7.7 years ago by
jolligoodfellow
• 0
0
votes
1
reply
1.0k
views
specify the color in plotMutationSpectrum() of SomaticSignatures library
SomaticSignatures
updated 7.7 years ago by
Julian Gehring
★ 1.3k • written 7.7 years ago by
sun
▴ 100
0
votes
6
replies
1.4k
views
SomaticSignatures: Interpretation of plotSamples graphs
somaticsignatures
7.8 years ago
Jane Merlevede
▴ 90
0
votes
2
replies
988
views
SomaticSignatures: properties of the estimated signatures
somaticsignatures
7.8 years ago
Jane Merlevede
▴ 90
0
votes
1
reply
1.0k
views
SomaticSignatures: extract low level information
somaticsignatures
somaticsignatures mutationcontext
updated 8.0 years ago by
Julian Gehring
★ 1.3k • written 8.0 years ago by
mathieu.bourgey
• 0
0
votes
1
reply
1.5k
views
SomaticSignatures: negative entries after ComBat adjustment
sva
somaticsignatures
batch effect
nmf
updated 8.0 years ago by
Jeff Leek
▴ 640 • written 8.0 years ago by
kw10
• 0
0
votes
1
reply
1.4k
views
Questions about SomaticSignatures package
somaticsignatures
8.3 years ago
Asma rabe
▴ 290
3
votes
4
replies
1.4k
views
Number of Signatures
somaticsignatures
updated 8.3 years ago by
Julian Gehring
★ 1.3k • written 8.3 years ago by
Asma rabe
▴ 290
0
votes
4
replies
1.1k
views
Assess number of Signatures in Somatic signatures
somaticsignatures
8.3 years ago
Asma rabe
▴ 290
1
vote
3
replies
1.0k
views
nReplicates in Somatic Signatures
somaticsignatures
updated 8.3 years ago by
Julian Gehring
★ 1.3k • written 8.3 years ago by
Asma rabe
▴ 290
0
votes
2
replies
1.4k
views
Number of Signatures in SomaticSignatures package
SomaticSignatures
8.4 years ago
Asma rabe
▴ 290
0
votes
1
reply
1.4k
views
.maf file in SomaticSignatures
somaticsignatures
updated 8.4 years ago by
Julian Gehring
★ 1.3k • written 8.4 years ago by
Mega
• 0
2
votes
3
replies
1.5k
views
Determining number of signatures in SomaticSignatures
somaticsignatures
updated 8.4 years ago by
Julian Gehring
★ 1.3k • written 8.4 years ago by
chang02_23
▴ 20
4
votes
1
reply
1.2k
views
SomaticSignature - what samples contributed to each signature
somaticsignatures
updated 8.4 years ago by
Julian Gehring
★ 1.3k • written 8.4 years ago by
chang02_23
▴ 20
6
votes
12
replies
3.9k
views
SomaticSignatures: Compare my datas with validated mutational signatures
somaticsignatures
mutational signature
updated 8.4 years ago by
chang02_23
▴ 20 • written 9.1 years ago by
muller.etienne
▴ 30
50 results • Page
1 of 1
Recent ...
Replies
Comment: Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and
by
Aastha Kapoor
• 0
After several attempts the code has worked. I connected to a faster internet connection. set the timeout (1000000) and run the command. I …
Comment: DESeq2 estimateSizeFactors iterate takes too long
by
Karthik
• 0
Hello, I agree with you, and we are in process of working with collaborators, but I wanted to get a general opinion on the data and get a …
Comment: It's possible to use clusterProfiler without an annotationDBI package
by
Guido Hooiveld
★ 3.8k
Code to show it works: > library(clusterProfiler) > > ## use provided 10 IDs, plus as last one add ID that has a GO annotati…
Comment: It's possible to use clusterProfiler without an annotationDBI package
by
Guido Hooiveld
★ 3.8k
You are almost there... Yet - pay attention to the error message (`--> No gene can be mapped.... --> Expected input gene ID: GO:0055080, .…
Comment: Problem loading HDF5Array in R 4.3.2
by
Sarah
• 0
Thanks for the reply! I tried this and it is crashing at `h5createFile("test.h5")` even after reinstalling **Rhdf5lib** and **rhdf5** It …
Votes
Answer: Limma/DESeq2 for unbalanced nested design (paired samples)
Result from GSEA for non-model organism not as expected
Comment: DESeq2 estimateSizeFactors iterate takes too long
Answer: DESeq2 estimateSizeFactors iterate takes too long
Comment: biomaRtl returns multiple GO terms when filtering on a single GO term in ensembl
Awards
• All
Scholar
to
Mike Smith
★ 6.2k
Scholar
to
Hervé Pagès
16k
Popular Question
to
bas_work
▴ 10
Popular Question
to
James W. MacDonald
64k
Popular Question
to
A
▴ 40
Locations
• All
Serbia,
2 minutes ago
France,
6 minutes ago
WEHI, Melbourne, Australia,
15 minutes ago
Sweden,
17 minutes ago
France,
20 minutes ago
Traffic: 974 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