morrislab phylowgs issues

morrislab / phylowgs

Application for inferring subclonal composition and evolution from whole-genome sequencing data.

GNU General Public License v3.0

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issues

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How to use the tumor purity information if the input data is created without using parser

#144 adhisadi opened 10 months ago
0
python 3

#143 HuairenZhang opened 1 year ago
1
The excessive number of mutations leads to a slow execution speed

#142 ghost opened 1 year ago
0
Questions about generating CNV Input file

#141 Inceid opened 1 year ago
0
LLH value in <mcmc_samples.txt> seems differ in different arch

#140 go-ahead-maker opened 1 year ago
0
Add CI for Linux x86_64 and aarch64

#139 martin-g opened 2 years ago
2
[Question] Is ARM64 supported ?

#138 julien-faye opened 2 years ago
3
Questions about pseudo-SSM variant read counts

#137 HushWay closed 2 years ago
2
Questions about the Integrating of copy number variation

#136 HushWay closed 1 year ago
0
Feature request: Export visualized output

#135 J-Moravec opened 3 years ago
0
Missing cnv's in cnv_data.txt

#134 ardydavari opened 3 years ago
4
problem with parse_cnvs.py script

#133 shaghayeghsoudi opened 3 years ago
2
problem with compiling

#132 shaghayeghsoudi closed 3 years ago
1
Visualization website dash board is empty

#131 wonwon0317 opened 3 years ago
2
Can we use phylowgs for WES data?

#130 nknewnew opened 3 years ago
1
LLH always equal to -Inf

#129 DavideMaspero opened 4 years ago
0
Visualization issues

#128 billy-kong opened 4 years ago
1
Assestion Error with the parser

#127 PCApple opened 4 years ago
1
Dealing with the input of multiple samples

#126 b-niu opened 4 years ago
0
Exact version of dependencies

#125 SoloveyMaria opened 4 years ago
0
How does PhyloWGS handle polyclonal seeding?

#124 bioinfograd opened 4 years ago
1
No trees shown in PhyloWGS Witness

#123 SwaggerNiels opened 4 years ago
5
"llh" returns -Infinity

#122 tianshilu opened 4 years ago
0
AssertionError when I run create_phylowgs_inputs.py

#121 llrhys opened 4 years ago
0
ValueError: `dataset` input should have multiple elements.

#120 skdhanda opened 4 years ago
2
PhyloWGS containerization

#119 kamichiotti opened 5 years ago
0
Issue with write results

#118 sahilseth opened 5 years ago
1
First draft Dockerfile

#117 kamichiotti closed 5 years ago
0
Assertion error at remove_superclones

#116 sowalsky opened 5 years ago
0
High number of populations

#115 Rashesh7 closed 8 months ago
5
Which Battenberg output file

#114 Rashesh7 closed 5 years ago
0
TitanCNA has changed the column names.

#113 b-niu opened 5 years ago
0
using multiple --tumor-sample flags for create_inputs

#112 dtm2117 opened 5 years ago
0
multievolve.py: ValueError: zero-size array to reduction operation maximum which has no identity

#111 zlin77 opened 5 years ago
5
RuntimeWarning using multievolve.py

#110 gengyuncong closed 5 years ago
1
Automating tree extraction and plotting

#109 underbais closed 5 years ago
2
Estimating the number of chains to run with

#108 underbais opened 5 years ago
6
Exception: 96% of trees are multiprimary (48149 of 50000), so not enough to report good posterior.

#107 junsung1 opened 5 years ago
4
TCGA Parsing Error: 'CallData' object has no attribute 'TD'

#106 sidhomj opened 5 years ago
1
Runtime questions

#105 bremsen opened 5 years ago
6
Add FACETS extension to CNV parser; changed the index_data.py script so it can be called outside of the folder

#104 aleighbrown opened 5 years ago
0
Witness index_data.py cannot be called properly unless inside the folder

#103 aleighbrown opened 5 years ago
3
Explanation of input data is unclear

#102 luciansmith opened 5 years ago
4
Important CNV missing from *.cnv.txt in multi-sample data

#101 aleighbrown closed 5 years ago
4
How to deal with normal CNV segment?

#100 ysbioinfo opened 6 years ago
1
Extracting CCFs from JSON files

#99 elifirem closed 6 years ago
2
Multi-sample complexity indices

#98 elifirem opened 6 years ago
0
Unexpected results on aml31 sample

#97 felixfrenkel opened 6 years ago
1
TitanCNA clustering solution selection

#96 peterpdu closed 6 years ago
2
Exception: 97% of trees are polyclonal , so not enough to report good posterior.

#95 Liulab opened 6 years ago
9