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UMCUGenetics
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MutationalPatterns
R package for extracting and visualizing mutational patterns in base substitution catalogues
MIT License
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problem with get_mut_type(data, type = "dbs", predefined_dbs_mbs = FALSE)
#87
riccardobergamin
opened
7 months ago
0
count_dbs_contexts() error
#86
ThomasGro
opened
9 months ago
1
Expected number of INDELs using genomic_distribution
#85
cutleraging
opened
9 months ago
3
How to solve this error: The input GRanges and the ref_genome share no seqnames (chromosome names)
#84
GuidoGallo
closed
9 months ago
0
easyrun error:
#83
asmo2a
opened
1 year ago
1
GenomeInfoDb::seqlevelsStyle(gr) <- GenomeInfoDb::seqlevelsStyle(genome)
#82
annecarolm
opened
1 year ago
1
Update README.md
#81
mroosmalen
closed
1 year ago
0
Mutation matrix as input instead of vcf files
#80
tc86
opened
1 year ago
1
Error with "read_vcfs_as_granges" function
#79
shaghayeghsoudi
opened
1 year ago
1
Mutational patterns on SarsCoV2 .vcf-Files
#78
Lukas67
closed
1 year ago
6
How to obtain the SNVs belong to a typical mutational signature
#77
Liyang-Zhang
opened
2 years ago
2
How to use MuationalPatterns (or if I can) with Copy number signatures
#76
ipstone
opened
2 years ago
2
Use extracted signature along with SBS
#75
mcdoz2010
opened
2 years ago
4
get_known_signatures Parameter Default Mismatch
#74
DarioS
closed
2 years ago
1
Allow Parallel Processing Utilising BiocParallel
#73
DarioS
opened
2 years ago
1
get_mut_type for indels results in empty GRangesList
#72
kristianunger
closed
2 years ago
2
Single strand mutational signatures
#71
gevro
closed
2 years ago
6
VCF with SNV and indels
#70
iranmdl
closed
2 years ago
0
fit_to_signatures_strict: Error in if (delta <= max_delta) { : missing value where TRUE/FALSE needed
#69
lincj1994
closed
2 years ago
1
How to deal with 'Intron' and 'IGR' variants from WES data when fitting signatures?
#68
lincj1994
closed
2 years ago
1
read_vcfs_as_granges() does not work
#67
CPTPaso
closed
3 years ago
5
Duplicate variants
#66
mcdoz2010
opened
3 years ago
13
Error Reading in VCF files for rheMac10
#65
Rashesh7
closed
2 years ago
2
fit_to_signatures_strict crashes, probably when initial extraction gives all weight to one signature
#64
jeff-mandell
closed
2 years ago
3
mut_matrix error
#63
xiw588
closed
2 years ago
3
Cosine similarity to COSMIC DBS and Indel signatures
#62
maanmi
closed
3 years ago
2
unexpected behaviour of read_vcfs_as_granges()
#61
ChristofferFlensburg
closed
2 years ago
5
Order of SNV types in mutation matrix
#60
kittysher
closed
3 years ago
2
How to perform the mutational pattern analyses based on maf file or tab delimited MAF file
#59
lincj1994
opened
3 years ago
1
Compatibility issues with custom forged BSgenomes
#58
joshbaskaran
closed
2 years ago
2
Installation with Conda
#57
kevwilhelm95
closed
3 years ago
3
Error: There are some REF or ALT bases, that do not belong to any of the categories.
#56
pdiakumis
closed
3 years ago
4
Using a new genome
#55
mullerbsf
closed
2 years ago
26
Binomial test p value
#54
FrancisBlokzijl
closed
2 years ago
1
Why mut_mat + 0.0001?
#53
b-niu
closed
4 years ago
2
Axis lable offsets
#52
sternp
closed
4 years ago
1
New release?
#51
pdiakumis
closed
3 years ago
6
replication strand bias
#50
FreekManders
closed
4 years ago
0
replication strand bias
#49
FreekManders
closed
4 years ago
2
Error with mut_type_occurrences function.
#48
galavots
closed
4 years ago
3
DBS and Indels
#47
bastiaanvdroest
closed
4 years ago
3
Develop2
#46
bastiaanvdroest
closed
4 years ago
1
Segfault (Memory Not Mapped) When Trying to Load Sample Data
#45
drmrgd
closed
4 years ago
7
mut_mat error
#44
twoshoes
closed
4 years ago
5
Data format of using this package
#43
xiw588
closed
5 years ago
6
Alternative input formats
#42
yunguan-wang
closed
5 years ago
1
nmf() rank factorization step is removing data and not plotting estimate rank plot
#41
leowill01
closed
5 years ago
2
How to average mutational profile for a group of samples
#40
KCLiv
closed
4 years ago
1
error in Loading required package: rtracklayer
#39
rescuz
closed
5 years ago
1
test
#38
FrancisBlokzijl
closed
5 years ago
0
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