Issues

• DA difference between global and local umap

  MarioniLab/miloR#383 · Filter by author domenico-somma opened on May 22, 2026

• Sample cell number issue

  MarioniLab/miloR#382 · Filter by author feather-W opened on Apr 26, 2026
  2

• Best practice for Milo with mixed-effects models and multiple comparisons

  MarioniLab/miloR#381 · Filter by author nmdrf opened on Mar 4, 2026
  1

• DA results change when varying d by one dimension on the same integrated object

  MarioniLab/miloR#379 · Filter by author lcoletto opened on Feb 16, 2026
  1

• Guidelines for large sample sizes

  MarioniLab/miloR#378 · Filter by author igordot opened on Jan 5, 2026
  5

• BayesianOptimization for parameter selection

  MarioniLab/miloR#374 · Filter by author SeZuNo opened on Sep 16, 2025

• Neighborhood Graph Construction shared or not

  MarioniLab/miloR#370 · Filter by author RunyuXia opened on Aug 5, 2025

• there were an error in testNhoods()

  MarioniLab/miloR#364 · Filter by author herong2006 opened on Apr 3, 2025
  10

• label hoods in NhoodGraphDA

  MarioniLab/miloR#363 · Filter by author Luuk024026 opened on Mar 28, 2025
  6

• Predefined Graph Import Still Not Available to Use

  documentation
  MarioniLab/miloR#318 · Filter by author DarioS opened on Apr 10, 2024
  6

• How to implement more complex contrast formulas

  MarioniLab/miloR#305 · Filter by author CarlottaHS opened on Feb 2, 2024
  5

• merging Nhood with logFC of opposite sign

  bug
  MarioniLab/miloR#270 · Filter by author gianfilippo opened on Mar 3, 2023
  20

  

• Overlay DA neighborhoods on embedding

  MarioniLab/miloR#251 · Filter by author mdmanurung opened on Nov 16, 2022

• Annotating nhoods by continuous covariates

  MarioniLab/miloR#218 · Filter by author emdann opened on May 10, 2022
  8

• [Minor] uniform parameter name for name of reducedDim slot

  MarioniLab/miloR#106 · Filter by author emdann opened on Jan 27, 2021

• Labelling from rowData in plotNhoodExpression

  MarioniLab/miloR#55 · Filter by author emdann opened on Oct 20, 2020
  1

  

• miloR::graph() conflicts with igraph::graph()

  enhancement
  MarioniLab/miloR#16 · Filter by author MikeDMorgan opened on Aug 21, 2020