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somaticsignatures
•
reset
0
votes
0
replies
253
views
SomaticSignatures normalization for trinucleotide motifs in reference genome
Normalization
SomaticSignatures
5 months ago
vasily.dobrovolsky
• 0
0
votes
4
replies
1.6k
views
Error of read in large vcf file using readVcf
SomaticSignatures
VariantAnnotation
updated 2.9 years ago by
James W. MacDonald
65k • written 2.9 years ago by
xiw588
• 0
1
vote
7
replies
1.2k
views
Help creating VRange object
vcf
somaticSignatures
Vrange
updated 5.0 years ago by
Julian Gehring
★ 1.3k • written 5.0 years ago by
maisapinheiro12
• 0
0
votes
0
replies
733
views
SomaticSignatures package: how can I get probability of certain mutation type within a signature?
somaticsignatures
5.4 years ago
spr
▴ 10
0
votes
7
replies
3.0k
views
nmf function not working
somaticsignatures
NMF
updated 5.5 years ago by
Xin
• 0 • written 5.8 years ago by
aslam.mohammed398
• 0
0
votes
5
replies
1.6k
views
Somatic Signature only SNV supported
somaticsignatures
5.6 years ago
TRASA
• 0
0
votes
0
replies
737
views
Formal class VRanges versus Large VRanges
somaticsignatures
vranges
readvcfasvranges
5.7 years ago
guillaume.dachy
• 0
0
votes
1
reply
1.1k
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 6.2 years ago by
shepherl
3.9k • written 6.2 years ago by
samuel.fux
• 0
0
votes
6
replies
2.8k
views
Somaticsignature NMF problem
somaticsignatures
NMF
updated 6.6 years ago by
grimmmmer
• 0 • written 7.2 years ago by
ns
• 0
1
vote
2
replies
1.6k
views
Trouble while concatenating VRanges object ()
somaticsignatures
somaticsignatures package
readvcfasvranges
vranges
6.8 years ago • updated 6.7 years ago
guillaume.dachy
• 0
0
votes
4
replies
1.8k
views
SomaticSignatures: Compare my signatures with published COSMIC datasets
somaticsignatures
6.7 years ago
john.alexander
• 0
2
votes
3
replies
1.3k
views
SomaticSignatures package : motifMatrix function trouble
somaticsignatures
6.9 years ago • updated 6.8 years ago
guillaume.dachy
• 0
0
votes
1
reply
1.0k
views
plotMutationSpectrum Colour By Patient with Multiple Samples
plotMutationSpectrum
somaticsignatures
somaticsignatures package
updated 6.9 years ago by
Julian Gehring
★ 1.3k • written 6.9 years ago by
bruce.moran
▴ 30
0
votes
5
replies
1.7k
views
SomaticSignatures: Transcription Factor Specific Mutation Signature Enrichment
somaticsignatures
somaticsignatures package
7.1 years ago
morovatunc
• 0
0
votes
1
reply
1.1k
views
Questions about SomaticSignatures packages
SomaticSignatures
updated 7.3 years ago by
Wolfgang Huber
★ 13k • written 7.3 years ago by
zzsu1999
• 0
0
votes
2
replies
1.1k
views
SomaticSignature - Significant signature
somaticsignatures
7.5 years ago
ksivapra
• 0
0
votes
1
reply
1.4k
views
How to compare SomaticSignatures package profiles with signatures listed by the Sanger Institute
somaticsignatures
updated 7.5 years ago by
Julian Gehring
★ 1.3k • written 7.5 years ago by
jonessara770
▴ 10
2
votes
4
replies
1.4k
views
SomaticSignatures plotSamples error
somaticsignatures
plotSamples
7.6 years ago
ns
• 0
3
votes
4
replies
3.5k
views
Error while running SomaticSignatures
somaticsignatures
updated 7.8 years ago by
Andy Lynch
▴ 120 • written 7.8 years ago by
poojitha.ojamies
• 0
0
votes
3
replies
1.1k
views
Observing composition of somatic signatures as barcharts
somaticsignatures
7.8 years ago
arsala521
▴ 10
0
votes
2
replies
1.0k
views
Number of tumor samples and analysis by SomaticSignature Package
somaticsignatures
updated 7.8 years ago by
Julian Gehring
★ 1.3k • written 7.8 years ago by
arsala521
▴ 10
0
votes
1
reply
968
views
Input files for somaticSignature
somaticsignatures
updated 7.8 years ago by
Julian Gehring
★ 1.3k • written 7.8 years ago by
poojitha.ojamies
• 0
1
vote
2
replies
1.1k
views
motifMatrix input object type, confused VRange and GRange
somaticsignatures
updated 7.8 years ago by
Julian Gehring
★ 1.3k • written 7.8 years ago by
solo7773
▴ 10
3
votes
8
replies
1.9k
views
Vcf to VRanges conversion error: ["incorrect number of dimensions"]
variantannotation
somaticsignatures
updated 7.8 years ago by
Michael Lawrence
★ 11k • written 7.9 years ago by
maria.vila
• 0
3
votes
3
replies
1.4k
views
makeVRangesFromGRanges throws coercing "factor" to "NA" error
r packages
somaticsignatures
variantannotation
updated 7.9 years ago by
Martin Morgan
25k • written 7.9 years ago by
solo7773
▴ 10
0
votes
3
replies
1.3k
views
Sequence Context of Somatic Variants
somaticsignatures
mutation context
updated 7.9 years ago by
Julian Gehring
★ 1.3k • written 7.9 years ago by
arsala521
▴ 10
1
vote
4
replies
1.8k
views
Converting VCF to VRanges
somaticsignatures
vranges
updated 7.9 years ago by
Julian Gehring
★ 1.3k • written 7.9 years ago by
arsala521
▴ 10
2
votes
8
replies
1.6k
views
Regarding Somatic Mutation Signature
somaticsignatures
updated 8.0 years ago by
Julian Gehring
★ 1.3k • written 8.0 years ago by
sj1
▴ 10
0
votes
5
replies
1.7k
views
Install SomaticSignatures (ERROR: compilation failed for package 'RBGL')
somaticsignatures
RGBL
8.0 years ago
user31888
▴ 30
0
votes
8
replies
1.7k
views
Regarding somatic signature package
somaticsignatures
updated 8.0 years ago by
Julian Gehring
★ 1.3k • written 8.0 years ago by
sj1
▴ 10
2
votes
2
replies
1.0k
views
geom problem with SomaticSignatures plotRainfall
SomaticSignatures
updated 8.1 years ago by
Julian Gehring
★ 1.3k • written 8.1 years ago by
fourie.joubert
▴ 20
1
vote
1
reply
1.1k
views
Contribution of Signature in each sample
mutational signature
somaticSignatures
updated 8.1 years ago by
Julian Gehring
★ 1.3k • written 8.1 years ago by
ksivapra
• 0
0
votes
1
reply
1.1k
views
Fitting somatic signatures to alexandrovs's
somaticsignatures
somaticsignatures mutationcontext
updated 8.1 years ago by
Julian Gehring
★ 1.3k • written 8.1 years ago by
jolligoodfellow
• 0
1
vote
2
replies
1.5k
views
Combining GRange/VRange objects
granges
vranges
readvcfasvranges
somaticsignatures
updated 8.1 years ago by
Michael Lawrence
★ 11k • written 8.1 years ago by
jpluta26
• 0
1
vote
2
replies
1.3k
views
SomaticSignatures - Getting Started & Trouble Shooting
software error
somaticsignatures
somaticsignatures mutationcontext
8.2 years ago
jpluta26
• 0
0
votes
1
reply
1.5k
views
mutational signatures problems
bsgenome
readvcf
tcga
annotation
somaticsignatures
updated 8.2 years ago by
Julian Gehring
★ 1.3k • written 8.2 years ago by
jolligoodfellow
• 0
0
votes
1
reply
1.2k
views
specify the color in plotMutationSpectrum() of SomaticSignatures library
SomaticSignatures
updated 8.2 years ago by
Julian Gehring
★ 1.3k • written 8.2 years ago by
sun
▴ 100
0
votes
6
replies
1.6k
views
SomaticSignatures: Interpretation of plotSamples graphs
somaticsignatures
8.3 years ago • updated 8.2 years ago
Jane Merlevede
▴ 90
0
votes
2
replies
1.1k
views
SomaticSignatures: properties of the estimated signatures
somaticsignatures
8.3 years ago
Jane Merlevede
▴ 90
0
votes
1
reply
1.1k
views
SomaticSignatures: extract low level information
somaticsignatures
somaticsignatures mutationcontext
updated 8.4 years ago by
Julian Gehring
★ 1.3k • written 8.4 years ago by
mathieu.bourgey
• 0
0
votes
1
reply
1.6k
views
SomaticSignatures: negative entries after ComBat adjustment
sva
somaticsignatures
batch effect
nmf
updated 8.5 years ago by
Jeff Leek
▴ 650 • written 8.5 years ago by
kw10
• 0
0
votes
1
reply
1.5k
views
Questions about SomaticSignatures package
somaticsignatures
8.7 years ago
Asma rabe
▴ 290
3
votes
4
replies
1.5k
views
Number of Signatures
somaticsignatures
updated 8.8 years ago by
Julian Gehring
★ 1.3k • written 8.8 years ago by
Asma rabe
▴ 290
0
votes
4
replies
1.3k
views
Assess number of Signatures in Somatic signatures
somaticsignatures
8.8 years ago
Asma rabe
▴ 290
1
vote
3
replies
1.1k
views
nReplicates in Somatic Signatures
somaticsignatures
updated 8.8 years ago by
Julian Gehring
★ 1.3k • written 8.8 years ago by
Asma rabe
▴ 290
0
votes
2
replies
1.5k
views
Number of Signatures in SomaticSignatures package
SomaticSignatures
8.8 years ago
Asma rabe
▴ 290
0
votes
1
reply
1.6k
views
.maf file in SomaticSignatures
somaticsignatures
updated 8.8 years ago by
Julian Gehring
★ 1.3k • written 8.8 years ago by
Mega
• 0
2
votes
3
replies
1.6k
views
Determining number of signatures in SomaticSignatures
somaticsignatures
updated 8.8 years ago by
Julian Gehring
★ 1.3k • written 8.8 years ago by
chang02_23
▴ 30
4
votes
1
reply
1.2k
views
SomaticSignature - what samples contributed to each signature
somaticsignatures
updated 8.8 years ago by
Julian Gehring
★ 1.3k • written 8.8 years ago by
chang02_23
▴ 30
6
votes
12
replies
4.2k
views
SomaticSignatures: Compare my datas with validated mutational signatures
somaticsignatures
mutational signature
updated 8.8 years ago by
chang02_23
▴ 30 • written 9.6 years ago by
muller.etienne
▴ 30
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