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Commits on Oct 16, 2024

• attempt to fix vignette errors on Bioc build server

  MikeDMorgan

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  66d18b5

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• version bump

  MikeDMorgan

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  339c766

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• Merge branch 'devel' into BIOC_DEVEL

  MikeDMorgan

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  e0c4fdc

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• tweak docs

  MikeDMorgan

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Commits on Sep 17, 2024

• Merge branch 'devel' into BIOC_DEVEL

  MikeDMorgan

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  66b4d77

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• version bump

  MikeDMorgan

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  a6b19d4

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• make DA nhoods stand out better in plotNhoodGraphDA - has user option to adjust transparency

  MikeDMorgan

  committed
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Commits on Sep 11, 2024

• revert to Lawson and Hanson NNLS solver instead of RcppML

  MikeDMorgan

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• allow user to set intercept type

  MikeDMorgan

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• add random effect intercept for residual variance component

  MikeDMorgan

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Commits on Aug 27, 2024

• update NEWS with glmm force=TRUE param'

  MikeDMorgan

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Commits on Aug 6, 2024

• add test for warnings on N<60 with GLMM

  MikeDMorgan

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• remove LM on MME - not the right approach

  MikeDMorgan

  committed
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• debug failures on small N

  MikeDMorgan

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Commits on Jul 24, 2024

• rejig failing test with accurate error message

  MikeDMorgan

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Commits on Jul 23, 2024

• more detail on solver recommendations

  MikeDMorgan

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• add information about solvers and checking converged vs. not-converged variance estimates

  MikeDMorgan

  committed
  3430e15

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• switch to RcppML NNLS solver - faster and less buggy

  MikeDMorgan

  committed
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Commits on Jul 4, 2024

• memoise HE intercept estimates

  MikeDMorgan

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Commits on Jul 3, 2024

• switch to Moore-Penros inverse for near-singlular systems

  MikeDMorgan

  committed
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• Merge branch 'matmult_optim' of github.com:MarioniLab/miloR into matmult_optim

  MikeDMorgan

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• enable OpenMP multithreading for big for-loops

  MikeDMorgan

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• add pre-computed PZ to genetic models

  MikeDMorgan

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• alright with the semi-colons!

  MikeDMorgan

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• missed a matrix definition statement

  MikeDMorgan

  committed
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• simplify vectorisation Z for all models

  MikeDMorgan

  committed
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• simplify Z vectorisation

  MikeDMorgan

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• add XtWinv and ZtWinv pre-computed matrices AND faster trace computation

  MikeDMorgan

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Commits on Jul 2, 2024

• implement PZ precompute for genetic model

  MikeDMorgan

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• add P*Z matrices

  MikeDMorgan

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• sum of rank-1 updates to inverse pseudocovariance is NOT faster than Woodburys identity

  MikeDMorgan

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• periodic data update

  MikeDMorgan

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Commits on Jun 3, 2024

• correct model contrasts vignette with correct code

  MikeDMorgan

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• update testNhoods docs with details re: contrasts behaviours in #304

  MikeDMorgan

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• Merge pull request #334 from MarioniLab/devel

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  MikeDMorgan

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