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Commits on Jun 4, 2025

• resolve BIOC versions

  MikeDMorgan

  committed
  874ed1b

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• Merge branch 'devel'

  MikeDMorgan

  committed
  b51a74f

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• minor version bump, NEWS update

  MikeDMorgan

  committed
  9bcf2ff

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• Update testNhoods.R

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  MikeDMorgan

  authored
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Commits on Apr 15, 2025

• bump x.y.z version to odd y following creation of RELEASE_3_21 branch

  

  A Wokaty

  committed
  a1179f3

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• bump x.y.z version to even y prior to creation of RELEASE_3_21 branch

  

  A Wokaty

  committed
  e8685ed

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Commits on Nov 20, 2024

• implement intuitive behaviour into groupNhoods so groups do not contain _any_ discordant LFCs

  MikeDMorgan

  committed
  b7a2881

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Commits on Oct 29, 2024

• bump x.y.z version to odd y following creation of RELEASE_3_20 branch

  jwokaty

  committed
  959804d

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• bump x.y.z version to even y prior to creation of RELEASE_3_20 branch

  jwokaty

  committed
  5e1d958

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Commits on Oct 23, 2024

• add sparseMatrixStats to suggests

  MikeDMorgan

  committed
  a7a9666

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Commits on Oct 20, 2024

• explicit import of sparseMatrixStats in GLMM vignette

  MikeDMorgan

  committed
  01704a5

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Commits on Oct 18, 2024

• fix additional errors in milo_glmm vignette

  MikeDMorgan

  committed
  836ae41

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• version bump

  MikeDMorgan

  committed
  019d29e

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• fix Bioc build errors in vignettes

  MikeDMorgan

  committed
  4f58847

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• add workaround for BiocNeighbors::findKNN subset argument not taking a character vector anymore

  MikeDMorgan

  committed
  c45f74f

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Commits on Oct 16, 2024

• attempt to fix vignette errors on Bioc build server

  MikeDMorgan

  committed
  66d18b5

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• version bump

  MikeDMorgan

  committed
  339c766

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• Merge branch 'devel' into BIOC_DEVEL

  MikeDMorgan

  committed
  e0c4fdc

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• tweak docs

  MikeDMorgan

  committed
  2d97b68

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Commits on Sep 17, 2024

• Merge branch 'devel' into BIOC_DEVEL

  MikeDMorgan

  committed
  66b4d77

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• version bump

  MikeDMorgan

  committed
  a6b19d4

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

  MikeDMorgan

  committed
  8a21c5e

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Commits on Sep 11, 2024

• revert to Lawson and Hanson NNLS solver instead of RcppML

  MikeDMorgan

  committed
  51bccaa

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• allow user to set intercept type

  MikeDMorgan

  committed
  58d5661

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• add random effect intercept for residual variance component

  MikeDMorgan

  committed
  c9024f7

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Commits on Aug 27, 2024

• update NEWS with glmm force=TRUE param'

  MikeDMorgan

  committed
  0b69bde

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Commits on Aug 6, 2024

• add test for warnings on N<60 with GLMM

  MikeDMorgan

  committed
  a9f0832

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• remove LM on MME - not the right approach

  MikeDMorgan

  committed
  76a6c40

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• debug failures on small N

  MikeDMorgan

  committed
  11fe86a

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Commits on Jul 24, 2024

• rejig failing test with accurate error message

  MikeDMorgan

  committed
  8bc8b1a

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Commits on Jul 23, 2024

• more detail on solver recommendations

  MikeDMorgan

  committed
  20a867a

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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
  fcf0aa5

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Commits on Jul 4, 2024

• memoise HE intercept estimates

  MikeDMorgan

  committed
  b331d03

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Commits on Jul 3, 2024

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

  MikeDMorgan

  committed
  48794f9

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