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dwinter
/
accuMUlate
code for calling mutatons from MA lines
MIT License
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6
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Segmentation fault (core dumped)
#43
sz1875597589
opened
1 year ago
0
Core dump
#42
lauraivillegasr
closed
1 year ago
0
Using accuMUlate with n=3
#41
lauraivillegasr
opened
3 years ago
0
Abort
#40
Yiguan
opened
4 years ago
0
sorting of BAM files
#39
hbdoria
opened
4 years ago
0
Document estimation of Phi
#38
dwinter
opened
5 years ago
0
Core dumped
#37
jshleap
opened
5 years ago
6
Mutational context in results table
#36
jshleap
opened
5 years ago
1
find RG tag correctly using BamTools API
#35
douglasgscofield
opened
6 years ago
2
Deletions being reported as SNPs
#34
reedacartwright
closed
7 years ago
3
Only use primary lines by default
#33
reedacartwright
closed
7 years ago
1
Update README.md
#32
stevenhwu
closed
7 years ago
0
Clean up
#31
dwinter
opened
8 years ago
0
useful error when specified config file unavailable
#30
aahowel3
closed
7 years ago
1
Use all sequencing data to infer ancestral genotype when summarising mutation
#29
dwinter
closed
7 years ago
0
-i option for accuMUlate broken
#28
aahowel3
closed
7 years ago
0
Exit when specified reference genome is not readable
#27
dwinter
closed
7 years ago
0
Documentation
#26
dwinter
closed
7 years ago
0
Develop cache
#25
stevenhwu
closed
9 years ago
0
Hotfix read data
#24
stevenhwu
closed
9 years ago
0
Implement new ReadData constructor for different cases
#23
stevenhwu
closed
7 years ago
3
Take genotype likelihoods or raw counts as input
#22
dwinter
opened
9 years ago
1
Develop cache
#21
stevenhwu
closed
9 years ago
2
Initialzation of m_samples() and ReadDataVector
#20
dwinter
closed
7 years ago
0
Try to remove dependence on third-party/bamtools
#19
stevenhwu
closed
7 years ago
0
Develop - Fixed travis CI
#18
stevenhwu
closed
9 years ago
2
Call the most likely mutation
#17
dwinter
closed
7 years ago
1
Specify nucelotide frequencies via one line in params.ini
#16
dwinter
closed
7 years ago
0
Check ploidy of anc/descentant matches available experimental design
#15
dwinter
closed
7 years ago
1
Speed up pileup
#14
dwinter
closed
7 years ago
1
Reuse genotyp probabilities using cache
#13
stevenhwu
closed
7 years ago
0
Output format
#12
dwinter
closed
8 years ago
0
When using intervals, only call sites within interval
#11
dwinter
closed
7 years ago
0
Optionally write to std out
#10
dwinter
closed
7 years ago
0
Clean up argument parsing/ setting up analysis in "main" loop
#9
dwinter
closed
7 years ago
0
Cache re-used objects
#8
dwinter
closed
7 years ago
0
Allow users to specify samples to include (and ancestral sample)
#7
dwinter
closed
7 years ago
2
function for ReadDataVector collection
#6
dwinter
closed
7 years ago
0
Allow variable ploidy for ancestor/descendant lines
#5
dwinter
closed
7 years ago
2
Speed of parsing
#4
dwinter
closed
9 years ago
0
New post processor
#3
dwinter
closed
7 years ago
0
Develop take 2
#2
stevenhwu
closed
10 years ago
0
Develop
#1
stevenhwu
closed
10 years ago
4