Feature/set agd regression #64

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AliGhanbari26 wants to merge 57 commits into dmphillippo:develop from AliGhanbari26:feature/set_agd_regression

AliGhanbari26 commented Jan 19, 2026

Applying OVB adjustment for LM, GLM (currently for binomial), COX PH, and AFT models.

dmphillippo added 30 commits

December 11, 2023 11:44


          Skeleton for set_agd_regression

5cb96f2


          Function to construct nma_data objects

ce330dd


          Implement set_agd_regression

fdd3a00


          Add tests for set_agd_regression

b1c286c


          Update combine_network

b333399


          Update class methods

e64b8d1


          Fix some tests

bd27598


          Use normal model by default for networks with only regression coefs

6da91bb


          Get agd_regression data in nma

6bf56c1


          Store regression formulae in agd_regression data

5c57a31


          Ignore agd_regression in calculating xbar

6ce1a44


          Update make_nma_model_matrix

93e961e


          Set NA values in data to reference level


          Fix intercepts in design matrix

dd79466


          Calculate which_RE for agd_regression too

a7e7e5f


          Run document

13094f1


          Start updating nma.fit

2f83368


          Update stan code to include agd regression coefficients

0c734a5


          Fix design matrix construction

19ef29c


          Fix design matrix for studies with alternative reference levels

b5eacdd


          Express MVN for regression coefficients same as contrast data

b16f58d


          Fix for multiple data sources

9d43d4e


          Fix term order calculation

a884480


          Fix for single studies only

6454a5d


          Fix set_agd_regression to take shared interaction estimates

c5ce6de


          Get random effects working with agd_regression data

b80f010


          Describe data format in docs

bf0c7b8


          Fix running models without agd_regression data

09a6934


          Fix dplyr warnings

cd2140c


          Fix nma.fit colnames check

c07dd71

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          Apply suggestions from code review: wording the error messages

8095af7

Co-authored-by: David Phillippo <david.phillippo@bristol.ac.uk>

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AliGhanbari26 and others added 6 commits

January 29, 2026 10:21


          Apply suggestions from code review: rewording messages

0a2e18b

Co-authored-by: David Phillippo <david.phillippo@bristol.ac.uk>


          Apply suggestions from code review: Stan codes

e95a7e3


          Merge branch 'develop' into feature/set_agd_regression

48d9d27


          Resolve conflicts

70940f0

Merge remote-tracking branch 'upstream/feature/set_agd_regression' into feature/set_agd_regression

# Conflicts:
#	R/nma.R
#	inst/stan/normal.stan


          Fix some bugs

1162eaa


          Update OVB adjustments for Cox PH

f8b6348

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