Issues

• In version 0.2.3 of Scrublet, setting use_approx_neighbors=True will cause the process to crash immediately.

  swolock/scrublet#70 · Filter by author SuperLuckyKris opened on Mar 8, 2026

• How to use scrublet for hashtagged samples?

  swolock/scrublet#69 · Filter by author st4302 opened on Feb 27, 2026

• appropriate value for n_prin_comps in scrub_doublets

  swolock/scrublet#67 · Filter by author cynthier opened on Sep 20, 2025

• installation error

  swolock/scrublet#66 · Filter by author jiw181 opened on Apr 16, 2025

• NumPy 2.0+ Compatibility Issue with Scrublet (ptp function)

  swolock/scrublet#65 · Filter by author rural-lady opened on Mar 19, 2025

• AttributeError: ptp was removed from the ndarray class in NumPy 2.0. Use np.ptp(arr, ...) instead.

  swolock/scrublet#64 · Filter by author lucygarner opened on Mar 17, 2025
  1

• Does scrublet change the barcode names?

  swolock/scrublet#62 · Filter by author st4302 opened on Nov 21, 2024

• scrub.scrub_doublets() hangs

  swolock/scrublet#61 · Filter by author obrien-james opened on Jun 14, 2024
  1

• does scrublet work with 10X fixed rna profiling?

  swolock/scrublet#60 · Filter by author tea-egg-sheldon opened on May 2, 2024

• Doubets do not occupy distinct states

  swolock/scrublet#59 · Filter by author AAA-3 opened on Jan 23, 2024

• Question normalize_variance

  swolock/scrublet#58 · Filter by author JuliaChristiaanse opened on Nov 15, 2023

• Scrublet runs into an endless loop

  swolock/scrublet#56 · Filter by author aditinarsale opened on Oct 17, 2023

• Export scrublet plots to .png or .pdf files

  swolock/scrublet#55 · Filter by author DieTANG opened on Jul 13, 2023
  2

• Multiplets after scrublet?

  swolock/scrublet#54 · Filter by author rhlgyb opened on Jun 22, 2023

• Doublet for mixed species

  swolock/scrublet#53 · Filter by author rjg2186 opened on May 29, 2023

• pip install error in windows anaconda prompt

  swolock/scrublet#52 · Filter by author archana433 opened on May 17, 2023
  2

• Will there be a version compatible with python 3.9?

  swolock/scrublet#51 · Filter by author havu73 opened on Apr 28, 2023

• Illegal instruction core dumped error

  swolock/scrublet#50 · Filter by author PDhingra2016 opened on Feb 24, 2023
  2

• input data with pearson residuals workflow

  swolock/scrublet#49 · Filter by author brainfo opened on Sep 23, 2022
  2

• output file with cell barcodes?

  swolock/scrublet#48 · Filter by author azwainCC opened on Sep 19, 2022

• Number genes value is different

  swolock/scrublet#47 · Filter by author IlianCx opened on Sep 14, 2022

• Potential mistake: percentile vs quantile

  swolock/scrublet#45 · Filter by author iaaka opened on Aug 11, 2022

• The result shows that there is only one double cell, but there are many on umap

  swolock/scrublet#44 · Filter by author ouyangcuihuaa opened on Jul 17, 2022

• pip install error

  swolock/scrublet#43 · Filter by author ulloaa opened on May 2, 2022
  2

• How to delete doublets from Seurat object

  swolock/scrublet#42 · Filter by author GreyRockIQ opened on Apr 24, 2022
  1