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Input data format #12

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shajoezhu opened this issue Feb 13, 2016 · 0 comments
Closed

Input data format #12

shajoezhu opened this issue Feb 13, 2016 · 0 comments

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@shajoezhu
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In the current version, input takes PLAF, REF count, ALT count, reference panel
REF and ALT currently only supports one sample, i.e. one column (plus chrom and position columns)
maybe merge REF and ALT into one file? if it is only one sample?
shajoezhu pushed a commit that referenced this issue Mar 27, 2021
@bredelings @shajoezhu
# This is a combination of 12 commits.
303026d 
# This is the 1st commit message:

Use c++17.

# This is the commit message #2:

Add headers log-double.hpp and logsum.hpp

# This is the commit message #3:

Use log_double_t for titre prior.

# This is the commit message #4:

Rename deltaLLKs to calcLikelihoodRatio and return log_double_t

# This is the commit message #5:

Convert calcLLK to calcSiteLikelihood returning log_double_t

# This is the commit message #6:

Add a product( ) function.

# This is the commit message #7:

Add templatized version of max_value( ) and min_value( ).

# This is the commit message #8:

Add adding of multiplying a vector by a constant.

# This is the commit message #9:

Simplify code to add constant to vector in buildEmission.

# This is the commit message #10:

Remove some asserts that are false during unit tests.

# This is the commit message #11:

Change vector<double> llk{0,1}_ to vector<log_double_t> siteLikelihoods{0,1}_

# This is the commit message #12:

Convert McmcMachinery::currentLLks to vector<log_double_t>.

Also rename it to currentSiteLikelihoods_.
shajoezhu added a commit that referenced this issue Mar 27, 2021
@shajoezhu
# This is a combination of 15 commits.
0a92cd7 
# This is the 1st commit message:

Use c++17.

# This is the commit message #2:

Add headers log-double.hpp and logsum.hpp

# This is the commit message #3:

Use log_double_t for titre prior.

# This is the commit message #4:

Rename deltaLLKs to calcLikelihoodRatio and return log_double_t

# This is the commit message #5:

Convert calcLLK to calcSiteLikelihood returning log_double_t

# This is the commit message #6:

Add a product( ) function.

# This is the commit message #7:

Add templatized version of max_value( ) and min_value( ).

# This is the commit message #8:

Add adding of multiplying a vector by a constant.

# This is the commit message #9:

Simplify code to add constant to vector in buildEmission.

# This is the commit message #10:

Remove some asserts that are false during unit tests.

# This is the commit message #11:

Change vector<double> llk{0,1}_ to vector<log_double_t> siteLikelihoods{0,1}_

# This is the commit message #12:

Convert McmcMachinery::currentLLks to vector<log_double_t>.

Also rename it to currentSiteLikelihoods_.

# This is the commit message #13:

fixing code style check

# This is the commit message #14:

update, refixing the style

# This is the commit message #15:

Add headers log-double.hpp and logsum.hpp
shajoezhu added a commit that referenced this issue Mar 27, 2021
@shajoezhu
# This is a combination of 21 commits.
4376852 
# This is the 1st commit message:

Use c++17.

# This is the commit message #2:

Add headers log-double.hpp and logsum.hpp

# This is the commit message #3:

Use log_double_t for titre prior.

# This is the commit message #4:

Rename deltaLLKs to calcLikelihoodRatio and return log_double_t

# This is the commit message #5:

Convert calcLLK to calcSiteLikelihood returning log_double_t

# This is the commit message #6:

Add a product( ) function.

# This is the commit message #7:

Add templatized version of max_value( ) and min_value( ).

# This is the commit message #8:

Add adding of multiplying a vector by a constant.

# This is the commit message #9:

Simplify code to add constant to vector in buildEmission.

# This is the commit message #10:

Remove some asserts that are false during unit tests.

# This is the commit message #11:

Change vector<double> llk{0,1}_ to vector<log_double_t> siteLikelihoods{0,1}_

# This is the commit message #12:

Convert McmcMachinery::currentLLks to vector<log_double_t>.

Also rename it to currentSiteLikelihoods_.

# This is the commit message #13:

fixing code style check

# This is the commit message #14:

update, refixing the style

# This is the commit message #15:

Add headers log-double.hpp and logsum.hpp

# This is the commit message #16:

Use log_double_t for titre prior.

# This is the commit message #17:

Rename deltaLLKs to calcLikelihoodRatio and return log_double_t

# This is the commit message #18:

Convert calcLLK to calcSiteLikelihood returning log_double_t

# This is the commit message #19:

Add a product( ) function.

# This is the commit message #20:

Add templatized version of max_value( ) and min_value( ).

# This is the commit message #21:

Add adding of multiplying a vector by a constant.
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@shajoezhu