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morrislab
/
phylowgs
Application for inferring subclonal composition and evolution from whole-genome sequencing data.
GNU General Public License v3.0
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prepare_cnvs.py doesn't standardize chromosome names
#94
lbeltrame
opened
6 years ago
0
Create inputs: discard lines where cnv start == cnv end, don't crash
#93
lbeltrame
opened
6 years ago
0
Cut a new release
#92
lbeltrame
opened
6 years ago
0
unexpected error
#91
Liulab
closed
6 years ago
6
Update printo.py
#90
AmitDeshwar
closed
6 years ago
1
Using TITAN with phyloWGS
#89
pchamely
closed
6 years ago
0
my VCF file is a combination of info from three different variant callers
#88
pchamely
closed
6 years ago
0
Parser
#87
marceaf23
opened
6 years ago
1
Multiple tumour samples
#86
adueso
opened
6 years ago
2
Current best way to choose the best tree
#85
pankevich-ev
opened
6 years ago
12
CNVs with same start and end position
#84
elifirem
opened
6 years ago
1
Mutect 4.0.0.0 support
#83
elifirem
closed
6 years ago
3
WES or not?
#82
underbais
closed
6 years ago
2
Battenberg input
#81
mauroraptor86
closed
6 years ago
4
Sex chromosomes issue
#80
underbais
closed
6 years ago
4
Improved documentation for output
#79
jounikuj
closed
6 years ago
1
Can this method be used for TCGA maf mutation file?
#78
ShixiangWang
closed
6 years ago
4
Post hoc mutation assignment
#77
mjz1
opened
6 years ago
2
CNV from Control-FREEC output file
#76
mauroraptor86
opened
6 years ago
8
Extracting clonal SSMs
#75
underbais
closed
6 years ago
10
Visualizing results
#74
underbais
closed
6 years ago
5
How to derive clonal CNVs?
#73
pankevich-ev
closed
6 years ago
1
Output of clonalFrequencies is empty
#72
juvejones
closed
6 years ago
3
How to handle "cellular_prevalence" in cnvs.txt if missing data
#71
ozill12
closed
6 years ago
3
Error while running the code
#70
heroapoorva
closed
6 years ago
5
Assert error when creating ssm_data.txt
#69
pspealman
closed
6 years ago
1
Error in Write_results.py, assertion error
#68
dtm2117
closed
6 years ago
1
Undocumented output in working directory
#67
davismcc
closed
6 years ago
1
Error when generating JSON result
#66
detorrentel
opened
7 years ago
14
Documentation clarification
#65
lachlansimpson
opened
7 years ago
2
Parser : priority-ssms not present in ssm_data.txt
#64
marcRDM
opened
7 years ago
0
Tree node colors
#63
af8
opened
7 years ago
1
cellular prevalence
#62
fakedrtom
opened
7 years ago
0
Best likelihood or "average" tree?
#61
detorrentel
opened
7 years ago
5
write_results.py fails
#60
detorrentel
closed
7 years ago
0
phyloWGS fails on test dataset
#59
davismcc
closed
7 years ago
4
Slow run
#58
asalcedo31
opened
7 years ago
1
About the CNV input
#57
Chuan-Jiang
closed
7 years ago
2
top k trees
#56
JenniferShelton
closed
7 years ago
0
Tree viewer in Witness is empty
#55
SunDionel
closed
7 years ago
6
Array length error when preparing files in a multi-samples setting
#54
af8
closed
7 years ago
2
Unable to creaate SSM_file.txt
#53
surajmetha55
closed
7 years ago
1
fixes #49
#52
amcpherson
opened
7 years ago
0
important SSMs not clustering?
#51
dtm2117
opened
7 years ago
7
Multi-sample mode
#50
amcpherson
closed
7 years ago
2
Add setup.py
#49
amcpherson
opened
7 years ago
1
how to interpret/derive data similar to fig. 9 and fig. 10 from PhyloWGS run?
#48
BhaktiDwivedi
opened
7 years ago
2
error while running evolve.py
#47
fazeln
closed
8 years ago
1
"Clustered Trees" View is empty and inferring sequence of mutations
#46
zafarali
opened
8 years ago
4
Generate input data using Mutec2 vcf
#45
wjaratlerdsiri
closed
8 years ago
1
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