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cancerit
/
cgpCaVEManWrapper
Reference implementation of CGP workflow for CaVEMan SNV analysis
http://cancerit.github.io/cgpCaVEManWrapper/
GNU Affero General Public License v3.0
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fixed Dockerfile generation version, config test calling
#61
CharlesNunn001
closed
1 month ago
0
Added copy line to docker image creation, and updated version
#60
CharlesNunn001
closed
1 month ago
0
Update to mnv flagging in cgpCaVEManPostProcessor (1.12.0)
#59
davidrajones
closed
1 year ago
0
protocol and seq_type are different
#58
davidrajones
opened
2 years ago
1
Hotfix/1.17.2
#57
davidrajones
closed
3 years ago
0
WIP: Hotfix/1.17.1
#56
keiranmraine
closed
3 years ago
2
if -index 1 is passed with -p flag only one split file is flagged
#55
jsmedmar
opened
3 years ago
3
arg default doesn't match cli help: read-count
#53
keiranmraine
opened
3 years ago
0
Updated Dockerfile and setup
#52
rulixxx
closed
3 years ago
1
Latest version installation problem: Can't locate Tabix.pm in @INC
#51
jsmedmar
closed
4 years ago
1
Missing run instructions
#50
winni2k
closed
4 years ago
2
algorithm write up messed up
#49
keiranmraine
opened
4 years ago
0
Feature/strand count bug
#48
keiranmraine
closed
4 years ago
0
Hotfix/1.15.3 - DO NOT MERGE
#47
ghost
closed
4 years ago
0
Upgrade cgpCaVEManPostProcessing version - DO NOT MERGE
#46
ghost
closed
4 years ago
2
Misleading variable in docker file
#45
keiranmraine
opened
4 years ago
0
Feature/log exp speedup
#44
ghost
closed
4 years ago
1
Feature/fix recent issues
#43
rulixxx
closed
4 years ago
4
Initial working version of the CaVEMan wrapper container
#42
ghost
closed
4 years ago
3
flagging, species name differences
#41
lucystebbings
opened
5 years ago
0
caveman.pl - Undocumented option -x/-exclude
#40
keiranmraine
opened
5 years ago
2
WIP: Hotfix/1.13.13 - DO NOT MERGE
#39
ghost
closed
5 years ago
1
DO NOT MERGE: Hotfix/1.13.11
#38
ghost
closed
5 years ago
0
WIP: review only
#37
keiranmraine
closed
5 years ago
1
Feature/overlapping reads
#36
ghost
closed
6 years ago
0
Pre-release tag for fragment analysis
#35
keiranmraine
closed
6 years ago
3
Feature/caveman io improvements
#34
ghost
closed
6 years ago
0
flagging step - implement scatter gather
#33
keiranmraine
closed
6 years ago
0
Resolve #31, exposes the -read-count option for 'caveman split'
#32
keiranmraine
closed
7 years ago
0
expose split size option
#31
keiranmraine
closed
7 years ago
0
Feature/caveman debug mode
#30
ghost
closed
7 years ago
0
--debug option
#29
ramaniak
closed
7 years ago
4
noflag option still requires flagging files
#28
ghost
closed
7 years ago
1
noflag option addition results in loss of flagged VCF file
#27
keiranmraine
closed
8 years ago
0
Feature/no flag required
#26
ghost
closed
8 years ago
0
Feature/issue resolution 27 11 15
#25
ghost
closed
8 years ago
0
Bug in flag step: species name.
#24
demh
closed
8 years ago
9
Expose -c and -d for caveman m/esteps
#23
keiranmraine
closed
8 years ago
0
Typo in help - circular dependencies
#22
ghost
closed
8 years ago
1
Fix error in limit based indicies, bumped version for immediate release
#21
keiranmraine
closed
9 years ago
0
Corrected header vs command line checks
#20
keiranmraine
closed
9 years ago
1
species and assembly were always being overwritten even when nothing fou...
#19
keiranmraine
closed
9 years ago
1
Correct version number for wrapper code
#18
keiranmraine
closed
9 years ago
0
Correct @ in regex problem.
#17
ghost
closed
9 years ago
0
Update to CaVEMan version 1.5.2
#16
ghost
closed
9 years ago
0
Default CN options and behaviour of species/assembly lookup adltered
#15
ghost
closed
9 years ago
0
Version option incorrect text
#14
keiranmraine
closed
8 years ago
2
'-h' and '-m' options reversed
#13
keiranmraine
closed
9 years ago
1
Addition of platform overrides to the wrapper script
#12
ghost
closed
8 years ago
0
htslib/caveman1.5.1
#11
keiranmraine
closed
9 years ago
1
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