dariober cnv_facets issues

dariober / cnv_facets

Somatic copy variant caller (CNV) for next generation sequencing

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issues

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Warning message: region "1" specifies an unknown reference name. Continue anyway.

#60 thebrownlife opened 3 months ago
2
Why are the results of all samples like this: ploidy=2.00; purity=NA?

#59 h170607 closed 10 months ago
1
Which vcf file should be used?

#58 h170607 closed 10 months ago
1
Error in 1:nchr : result would be too long a vector

#57 jeffchen2000 opened 11 months ago
2
Do I need to set "--target" option for exome data?

#56 jeffchen2000 closed 11 months ago
1
issue installing cnv_facets using conda

#55 dalalsult opened 1 year ago
4
question about ploidy estimate

#54 guillaume-rs closed 1 year ago
2
difference between LOH and DUP-LOH

#53 guillaume-rs closed 1 year ago
2
How to generate Gistic2.0 input data from cnv_facets output

#52 LileeGao opened 1 year ago
4
Tabular output from `cnv_facets`

#51 Faizal-Eeman closed 1 year ago
1
--min-read-counts hardcoded to 0,0 instead of 25,0 as recommended by FACETS manual

#50 bozbezbozzel closed 1 year ago
2
Not able to install cnv_facets on my Mac system and on BioHPC

#49 akhileshmishra0908 opened 1 year ago
0
when input bam , nedd to remove or mark duplicates filres?

#48 YangLeng90 closed 1 year ago
1
purity=NA

#47 stroke1989 opened 2 years ago
1
error in evaluating the argument 'con' in selecting a method for function 'isOpen': TabixFile: file(s) do not exist:

#46 asmlgkj closed 2 years ago
4
have no records

#45 stroke1989 closed 2 years ago
5
Issue with facets execution

#44 nsoriano2 opened 2 years ago
7
Annotate facets output

#43 tstokowy opened 2 years ago
0
Cluster execution halted error with "parallel" in R 4.1.0 version on RHEL8 machine.

#42 shivak3 closed 2 years ago
7
chromosome name

#41 sotaro-kanematsu closed 2 years ago
1
WGS recommendations for chromothripsis analysis

#40 ahwanpandey opened 2 years ago
0
conda install not working

#39 lydiayliu closed 2 years ago
1
Fonts missing? Incorrect plotting of png file.

#38 tstokowy opened 3 years ago
12
Issues with install dependencies

#37 umasaxena opened 3 years ago
2
Clarification on segment start value

#36 vymao closed 3 years ago
1
install cnv_facets 0.16.0 with r-facets 0.6.1 using anaconda3

#35 jh2663 opened 3 years ago
1
Segmentation values for targeted panels?

#34 vymao closed 3 years ago
3
R dependency issue

#33 vymao opened 3 years ago
3
vcf file

#32 sotaro-kanematsu closed 3 years ago
1
Update facets v0.5.14 to v0.6.1

#31 ckandoth opened 3 years ago
1
conda cnv_Facets does nbot work

#30 worker000000 closed 3 years ago
1
The start position of the ouput vcf

#29 YingYa opened 3 years ago
0
Can I force the ploidy to a specific value (experimentally validated) in facets?

#28 Francesc-Muyas opened 3 years ago
0
log-odds-ratio threshold for LOH

#27 ahwanpandey opened 3 years ago
0
Cannot allocate memory error

#26 alhafidzhamdan opened 4 years ago
1
mkfifo: cannot create fifo...

#25 mizunokei opened 4 years ago
12
CRAM format support?

#24 YingYa opened 4 years ago
0
--snp-vcf option

#23 viancheng closed 4 years ago
1
v c f

#22 xiucz closed 4 years ago
1
LCN_EM=. ?

#21 wclee47 closed 4 years ago
1
Pooled multiple controls bam files together ?

#20 npatel22526 closed 4 months ago
4
Skip plot_coverage function [Feature request]

#19 PubuduSaneth closed 4 years ago
6
Biocontainers cnv_facets docker images - not functional

#18 PubuduSaneth closed 4 years ago
2
Clarification concerning CF_EM info tag

#17 PubuduSaneth closed 4 years ago
2
Germline CNV calling?

#16 xysj1989 closed 4 years ago
1
Running cnv_facets for tumor samples that don't have normal counterpart samples

#15 LeiG1103 closed 4 years ago
1
libcrypto.so.1.0.0 error in cnv_facets.

#14 wangxlab closed 4 years ago
4
Run SNP-pileup only [Feature Request]

#13 not-rs opened 4 years ago
1
facets fails when first row of snp pileup is not "chr1"

#12 stevekm closed 4 years ago
2
--ncores or --snp-nprocs

#11 jh2663 closed 5 years ago
1