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VanLoo-lab
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ascat
ASCAT R package
https://www.mdanderson.org/research/departments-labs-institutes/labs/van-loo-laboratory/resources.html#ASCAT
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ascat.plotRawData picking up whole path, not filename
#135
anndalf
closed
1 year ago
2
analyze the CNV of cancer cell lines with whole exome sequence
#134
LongpanUPC
closed
1 year ago
4
Number of markers per segment
#133
kw10
closed
1 year ago
4
Loci and allele file missing for sex chromosomes WES (hg19 battenberg reference files)
#132
Indianhedgehog
closed
1 year ago
2
ASCAT run without matched normal data
#131
fuzhiliang
closed
1 year ago
1
Classifying alterations?
#130
Indianhedgehog
closed
1 year ago
6
Purity estimates with no SCNAs or very low purity.
#129
kw10
closed
1 year ago
3
How to call ascat in conda?
#128
Indianhedgehog
closed
1 year ago
2
ASCAT could not find an optimal ploidy and purity value
#127
yumh0811
closed
1 year ago
7
V3.1
#126
tlesluyes
closed
1 year ago
0
Sex chromosome copy number for males?
#125
jarbet
closed
1 year ago
3
Issue with GC correction (ascat.correctLogR) in targeted sequencing data
#124
ValerieCrolley
closed
1 year ago
14
Issue with ascat.prepareHTS
#123
ValerieCrolley
closed
1 year ago
5
Tumor only mode for WGS
#122
byeongill
closed
1 year ago
4
No SNPs detected in TAS data by ion torrent.
#121
leap-ahead225
closed
1 year ago
1
logR and BAF from tumour only
#120
haeflis628
closed
1 year ago
5
Update v3.1 based on master
#119
tlesluyes
closed
1 year ago
0
could you please share your scripts to convert VCF file into snp_loci ?
#118
panxiaoguang
closed
1 year ago
2
germline A/B counts
#117
imendizabalCIC
closed
1 year ago
5
LogR for normal from prepareHTS is 0
#116
shmuen
closed
1 year ago
2
cna analysis in cn_segment data processed based on MSK-IMPACT targeting sequencing data
#115
KKAres
closed
1 year ago
2
Allele-Specific cn analysis by shallow WGS
#114
mawh-SCU
closed
2 years ago
1
Error in running male samples
#113
rkataine
closed
2 years ago
5
Update v3.1 from master
#112
tlesluyes
closed
2 years ago
0
Fix Seed?
#111
FriederikeHanssen
closed
1 year ago
4
Update v3.1 based on master
#110
tlesluyes
closed
2 years ago
0
v3.0.0 error in ascat.plotSunrise
#109
sraorao
closed
2 years ago
1
Update doc
#108
tlesluyes
closed
2 years ago
0
Is ascat deterministic on multi-threaded systems?
#107
sclan
closed
2 years ago
1
Baseline building requirments
#106
pegasusCN
closed
2 years ago
3
Nonnegative whole numbers for germline heterozygous SNPS
#105
pegasusCN
closed
2 years ago
1
error message
#104
bio-rain
closed
2 years ago
3
could using only tumor.bam extract logR and BAF?
#103
bio-rain
closed
2 years ago
1
Switch to v3.1
#102
tlesluyes
closed
2 years ago
0
Update (from v3.0)
#101
tlesluyes
closed
2 years ago
0
Normal prefix in prepareHTS
#100
SusiJo
closed
2 years ago
2
Update dependencies + doc
#99
tlesluyes
closed
2 years ago
0
Update dependencies + doc
#98
tlesluyes
closed
2 years ago
0
Reference Files for WES
#97
SusiJo
closed
2 years ago
7
Error when only one segment
#96
hubentu
closed
2 years ago
5
Small fix so ASPCF uses SNPpos[] instead of SNPpos$
#95
tlesluyes
closed
2 years ago
0
Small fix (remove ascat.bc object).
#94
tlesluyes
closed
2 years ago
0
Problem with R source code
#93
ghost
closed
2 years ago
2
Update doc (from v3 branch)
#92
tlesluyes
closed
2 years ago
0
Allow setting of purity parameter
#91
tlesluyes
closed
2 years ago
0
Update from v3.0 branch
#90
tlesluyes
closed
2 years ago
0
Error Running ASCAT
#89
Krishna4369
closed
2 years ago
5
Update v3.0
#88
tlesluyes
closed
2 years ago
0
Ploidy and Purity optimal solution and alternatives
#87
gtsaousis
closed
2 years ago
2
v3.0
#86
tlesluyes
closed
2 years ago
0
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