broadinstitute ichorCNA issues

broadinstitute / ichorCNA

Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.

GNU General Public License v3.0

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issues

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Error in Optimization

#39 sengoku93 opened 6 years ago
2
Scripts will be installed with package

#38 ryanrichholt opened 6 years ago
4
incomplete ichorCNA documentation

#37 rahulram70 opened 6 years ago
0
Error in rep.int(rows, nr) : invalid 'times' value

#36 rahulram70 closed 6 years ago
0
*rds, mappability and gc wig files for more bin sizes

#35 andreykoch opened 6 years ago
3
Panel of Normal Documentation Incomplete

#34 rahulram70 closed 6 years ago
1
script folder not in ichorCNA directory

#33 rahulram70 opened 6 years ago
1
Permission denied when git repository is cloned

#32 rahulram70 closed 6 years ago
2
could not find symbol "recursive" in environment of the generic function

#31 haoziyeung opened 6 years ago
3
ERROR : span is too small

#30 smangul1 opened 6 years ago
2
Creation of Mappability Files

#29 mej54 closed 5 years ago
2
gender determination

#28 Jingjiao-ma opened 6 years ago
6
custom parameters for 30x WGS TitanCNA analysis

#27 sbamin closed 6 years ago
1
Frac. CNA Subclonal: 0.99

#26 Jingjiao-ma opened 6 years ago
1
HMMcopy is not available for ichorCNA

#25 andreykoch opened 6 years ago
3
Error in seq.default(from = as.integer(tokens[2]), by = as.integer(tokens[3]),

#24 2075222 opened 6 years ago
4
Creating mappability wig file from UCSC mappability tracks

#23 thestarocean opened 6 years ago
2
hg38 mappability files

#22 leraman closed 6 years ago
4
Negative log2ratios are called GAIN

#21 lbeltrame opened 6 years ago
4
ichorCNA copy number ratio in the cna.seg file differs from the genome wide plot

#20 manasa-surakala opened 6 years ago
1
Point users to HMMcopy's GitHub repository

#19 lbeltrame closed 6 years ago
1
ichorCNA.R script requires optparse but this dependency is not documented

#18 lbeltrame opened 6 years ago
1
stLikelihood params

#17 Alicimo closed 6 years ago
1
CfDNA tumor fraction threshold for ichorCNA detection

#16 thestarocean opened 6 years ago
6
shotgun sequencing Data compatibility

#15 Pawar2018 opened 6 years ago
6
Error in `[[<-`(`*tmp*`, name, value = c(-1, -1, 0.598332, 0.539498, 0.594508, :

#14 haoziyeung closed 6 years ago
13
Format of exons bed file

#13 chowbina opened 6 years ago
5
Error in (function (cl, name, valueClass)

#12 Jingjiao-ma closed 6 years ago
4
error in breaks

#11 avilella opened 6 years ago
3
run ichorCNA on hg38

#10 dnaase opened 6 years ago
8
hg38 mappability file

#9 leraman closed 6 years ago
3
Bug in plotting.R

#8 biomorph closed 6 years ago
5
metrics definitions

#7 avilella closed 6 years ago
1
Missing datadir argument option

#6 simozacca closed 6 years ago
1
Reference genome with the prefix 'chr'

#5 joonlee3 closed 6 years ago
2
minimum command-line execution with parameter defaults

#4 avilella closed 6 years ago
1
Creating custom panel of normals

#3 gavinha closed 6 years ago
7
HMMcopy output format/version?

#2 chrisprobert closed 7 years ago
2
equivalent files to hg19 extdata for GRCh38

#1 avilella closed 6 years ago
3