mskcc facets issues - Githubissues

mskcc / facets

Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.

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segclust Missing Error

#154 DarioS opened 4 years ago
0
facets.R RAM issue

#153 alhafidzhamdan opened 4 years ago
0
Weird regions of homozygous deletion

#152 af8 opened 4 years ago
0
snp-pileup compilation issue

#151 kibala93 opened 4 years ago
1
is it a bug of emcncf

#150 jidixueye opened 4 years ago
0
no output

#149 lihm1 opened 5 years ago
1
Question: Should remove duplicates before using facets?

#148 ShixiangWang closed 5 years ago
2
Some urgent questions about facets result

#147 ShixiangWang closed 5 years ago
7
Purity estimate =NA despite copy numbers present

#146 GeorgetteTanner opened 5 years ago
19
Incoherent values of LogR estimate & Total Copy number estimate

#145 Pacomito opened 5 years ago
2
Random selection of SNPs that are close to each other

#144 teng-gao opened 5 years ago
0
Ploidy and purity estimates

#143 kw10 opened 5 years ago
1
arguments imply differing number of rows: 0, 1

#142 daormar closed 5 years ago
1
"missing value where TRUE/FALSE needed" error

#141 JosephMcCarter opened 5 years ago
7
"non-conformable arrays" error

#140 JosephMcCarter opened 5 years ago
0
Matching segment number between marker file (oo$jointseg) and segment file (fit$cncf)

#139 teng-gao opened 5 years ago
0
no output

#138 lihm1 closed 5 years ago
0
CNAs for a gene list

#137 AsmaaBio closed 5 years ago
0
snp loci files

#136 AsmaaBio closed 5 years ago
0
snp-pileup compile error

#135 AsmaaBio closed 5 years ago
0
CF and subclonality?

#134 jh2663 opened 5 years ago
1
facets plot interpretation

#133 bl8sanger opened 5 years ago
0
what's the most accurate and suitable value for critical value of segmentation?

#132 lidd77 opened 5 years ago
0
Error in installation of facets

#131 wangxlab opened 5 years ago
1
Log likelihood reported may be negative

#130 dvenet opened 5 years ago
6
Ploidy not updated while tracing emcncf

#129 dvenet closed 5 years ago
1
could not find function "procSnps"

#128 zy-zhangyun opened 5 years ago
0
Error: package 'pctGCdata' 0.2.0 was found, but >= 0.3.0 is required by 'facets'

#127 brucemoran closed 5 years ago
2
NA purity, in a sample with several CNV estimates

#126 sahilseth closed 5 years ago
4
Merging mskcc and veseshan master

#125 veseshan closed 5 years ago
0
Testing

#124 veseshan closed 5 years ago
0
Documentation should be updated to install relevant pctGCdata package

#123 alongalor opened 5 years ago
1
Different read depth of sequencing.

#122 huangyizR opened 5 years ago
3
how should i get clone and subclone from the cf.em

#121 kobejamescurry closed 5 years ago
1
through emcncf(oo)$cncf to annotate concrete genes

#120 kobejamescurry closed 5 years ago
1
facets focus on asan, so what is different from conventinal tool cnvkit?

#119 kobejamescurry closed 5 years ago
3
how to give the cnv position concretely from the plotSample(x=oo,emfit=emcncf(oo))?

#118 kobejamescurry closed 5 years ago
1
how do you get homozygous SNPs?

#117 kobejamescurry closed 5 years ago
2
logOR may still ignore one possibility?

#116 kobejamescurry closed 5 years ago
0
deletions column unusually high in SNP-pileup

#115 mheskett opened 5 years ago
1
LogR and LogOR, log2 or natural log

#114 cytrix1 opened 5 years ago
1
ploidy and copy number states very different between SNParray (ASCAT) and WGS (FACETS)

#113 ahwanpandey opened 5 years ago
3
Guidance on interpretation of warning messages

#112 aleighbrown opened 5 years ago
0
How to fill value for chromosome not called by facets

#111 ShixiangWang closed 5 years ago
4
Testing

#110 veseshan closed 5 years ago
0
error in preProcSample - caused by chrM in snppileup

#109 aleighbrown closed 5 years ago
1
Error in preProcSample: Error in fit.cpt.tree(genomdat, cval = cval, hscl = hscl, delta = delta)

#108 sa256 opened 5 years ago
1
cnv_facets.R: convenient command line interface for facets

#107 dariober opened 5 years ago
8
FACETS installs with errors in the beginning

#106 WortJohn closed 5 years ago
3
gfortran required

#105 chjp opened 5 years ago
1

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