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cancerit
/
ascatNgs
Somatic copy number analysis using WGS paired end wholegenome sequencing
http://cancerit.github.io/ascatNgs/
GNU Affero General Public License v3.0
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How to output all the solution that ASCATngs found?
#70
jiaqianwang
closed
7 years ago
1
Modifying Ascat.R parameters
#69
jaesvi
closed
7 years ago
1
RColorBrewer not listed as dependency for R
#68
keiranmraine
closed
6 years ago
1
Incomplete output running ascat.pl
#67
yuranymoreno
closed
7 years ago
3
readme formatting is messed up
#66
keiranmraine
closed
6 years ago
1
Handle chr/non-chr magically
#65
keiranmraine
opened
7 years ago
0
allele_count from ascatNgs are all zeros
#64
freya666
closed
7 years ago
2
Feature/tsv to big wig
#63
keiranmraine
closed
7 years ago
1
Running ascatNGS without matched normal data
#62
makarov-mskcc
closed
6 years ago
1
Human reference files from 1000 genomes VCFs : Illegal division by zero error
#61
sb43
closed
8 years ago
1
Indicate removal of legacy files
#60
keiranmraine
closed
7 years ago
0
Move 'Executing:...' to after version output
#59
keiranmraine
closed
7 years ago
1
How to make ASCAT input files
#58
rkumar87
closed
8 years ago
1
Add even more obvious indicator not to be used for WXS
#57
keiranmraine
closed
7 years ago
0
Feature/travis
#56
keiranmraine
closed
8 years ago
0
Speedup ASPCF
#55
keiranmraine
closed
8 years ago
1
Typo in ascat.pl -h usage
#54
keiranmraine
closed
7 years ago
0
Strip prefix chr from counts file before passing to ASCAT
#53
keiranmraine
closed
8 years ago
0
Update readme to show core ascat release
#52
keiranmraine
closed
8 years ago
0
Extract min/max ploidy/purity from distance matrix
#51
keiranmraine
opened
8 years ago
0
1000 genome SNP panel generation
#50
mjz1
closed
8 years ago
4
Feature/curr protocols cleanup
#49
keiranmraine
closed
8 years ago
0
Some reference files are unnecessary
#48
keiranmraine
closed
8 years ago
0
Remove ascat.R from distribution
#47
keiranmraine
closed
8 years ago
1
Link to ASCAT web-site
#46
keiranmraine
closed
8 years ago
0
Handle variable chr count
#45
keiranmraine
closed
8 years ago
0
samplename not found
#44
Hbm3085
closed
8 years ago
1
ascat.pl -gc usage typo
#43
keiranmraine
closed
8 years ago
0
setup.sh fails to find pre-req PERL5LIB dirs
#42
ink1
closed
8 years ago
1
Feature/defer to allele count for gender
#41
keiranmraine
closed
8 years ago
0
Feature/allele count by chr
#40
keiranmraine
closed
8 years ago
0
Understanding Ascat output
#39
komalsrathi
closed
8 years ago
1
Expected ASCAT output file missing: TUMORNAME.aberrationreliability.png
#38
komalsrathi
closed
8 years ago
2
Feature/species agnostic
#37
keiranmraine
closed
8 years ago
0
X.samplestatistics.csv should be X.samplestatistics.txt
#36
keiranmraine
closed
8 years ago
1
Input step - make per-chromosome
#35
keiranmraine
closed
8 years ago
1
Added an option to skip the cleanup.
#34
ghost
closed
8 years ago
0
Feature/prevent accidental restart
#33
keiranmraine
closed
8 years ago
0
protect against accidental overwrite
#32
keiranmraine
closed
8 years ago
0
Usage documentation for ASCAT NGS
#31
blecuacp
closed
8 years ago
2
Added options for rho and psi in the ascat.pl script (purity and ploidy) to allow rerun with these set
#30
ghost
closed
8 years ago
1
Add options for rho and psi to ascat.pl
#29
ghost
closed
8 years ago
0
Can it work without matched control?
#28
alkodsi
closed
8 years ago
1
GC content file
#27
alkodsi
closed
9 years ago
1
fail on CN_to_VCF step
#26
alkodsi
closed
8 years ago
5
Revises gender determination to be based on normal sample only.
#25
keiranmraine
closed
9 years ago
0
Merge for release
#24
keiranmraine
closed
10 years ago
0
Updated to use more robust gender check
#23
keiranmraine
closed
10 years ago
0
tests checking output of dependancy needed updating
#22
keiranmraine
closed
10 years ago
0
Allow 'forced' completion on failed ascat analysis
#21
keiranmraine
closed
10 years ago
0
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