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BoevaLab
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FREEC
Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
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Regions missing from ratio file
#152
BhumikaPriyadarshini
opened
5 days ago
0
FREEC segfaulting at "annotate copy numbers": `cannot create std::vector larger than max_size()`
#151
dmgie
opened
1 week ago
0
fixed variable name to allow detection of control sample on command line
#150
af8
closed
1 month ago
1
Segmentation fault after samtools or sambamba read the BAM file
#149
Calhs
opened
1 month ago
2
get the float copy number values
#148
hushuzuiniu
opened
2 months ago
2
What is the meaning of suclonal information in the _ratio.txt file
#147
kmavrommatis
opened
2 months ago
1
Understanding _ratio.txt and _BAF.txt for counting informative markers
#146
kmavrommatis
opened
2 months ago
1
questions about ratio.txt
#145
ZYongQi
opened
2 months ago
3
No normalization although it is requested
#144
s-juross
closed
2 months ago
2
error in running gccount
#143
DeMagicscience
opened
5 months ago
1
Some settings for WGS explaind in manual are not included in provided config file for WGS.
#142
monagai
opened
6 months ago
0
missing p values in assess_significance.R
#141
s-juross
opened
6 months ago
0
questions about the output
#140
ZYongQi
opened
8 months ago
7
Add docker build action
#139
avigailmo
closed
9 months ago
0
Add docker build action
#138
avigailmo
closed
9 months ago
0
freec can't extract reads from bam file
#137
ZYongQi
opened
9 months ago
1
Addressing issues due to nan values, causing need finite 'ylim' value…
#136
nschcolnicov
opened
1 year ago
0
All zero reads with segfault
#135
dgodin19
opened
1 year ago
1
Somatic cnv issue
#134
awast
opened
1 year ago
0
Problem making plots
#133
Gon1976
opened
1 year ago
2
Make graph error
#132
Gon1976
closed
1 year ago
1
New release including makeGraph 2.0?
#131
FriederikeHanssen
closed
1 year ago
1
Error: to calculate BAF values
#130
ghost
opened
1 year ago
2
failed to run segmentation on chr*
#129
ngualand
opened
1 year ago
0
run with multiple control files
#128
lmanchon
opened
1 year ago
2
Questions about the output of CNVs and the use of assess_significance
#127
stbio-hbh
opened
1 year ago
3
no colors in makeGraph2.0.R script
#126
kostasgalexiou
closed
1 year ago
1
Question about the output of freec2bed.pl
#125
taoziyu97
opened
1 year ago
0
ERROR : Unable to open fasta file for chr22 (mm10 | WGS)
#124
Matheo-Lode
opened
1 year ago
4
ERROR: there was a problem in the initial guess of the polynomial
#123
KamilMaliszArdigen
opened
1 year ago
8
The problem of FREEC_ratio2Absolute.R
#122
xiasijian
opened
1 year ago
3
running Control-FREEC on multiple tumor/normal paired samples
#121
awast
opened
1 year ago
3
Error: your BED file with coordinates of targeted regions may contain duplicates.
#120
awast
opened
1 year ago
0
How to detect LOH?
#119
xiasijian
opened
1 year ago
0
input for ABSOLUTE for CCF calculation
#118
amootta
opened
1 year ago
5
_ratio.txt output
#117
ashenflower
opened
1 year ago
4
How to make a selection Non-human min/max ExpectedGC
#116
Yixiangzhang1996
opened
1 year ago
3
Clarification of a neutral CNV
#115
vucinick
opened
1 year ago
2
LOH calls on somatic CNVs
#114
dmasoodfda
opened
1 year ago
44
either 'chrFiles' or 'GCcontentProfile' must be set even a normal BAM is provided.
#113
sunjh22
opened
2 years ago
1
Workflow 12.0
#112
kirilllzaitsev
opened
2 years ago
0
Error: your BED file with coordinates of targeted regions may contain duplicates Check chromosome 1
#111
nbiqgi
closed
2 years ago
2
Issue running FREEC on fungal genome
#110
tania-k
closed
2 years ago
7
Somatic CNVs
#109
Akazhiel
opened
2 years ago
1
NCBI has different annotation
#108
RochaLAJ
closed
2 years ago
2
Error: unable to open file or unable to determine types for file
#107
stroke1989
opened
2 years ago
2
feature request: Ignore chromosomes not in caputre file instead of failing
#106
FriederikeHanssen
opened
2 years ago
0
"freec -conf <config file> -sample <mySample.bam> -control <myControl.bam> " is not used
#105
angeladarling
opened
2 years ago
3
Alternative FREEC usage from a container
#104
kirilllzaitsev
opened
2 years ago
0
Abnormally low reads used to compute CN profile
#103
WillieYu
closed
2 years ago
1
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