Issues

• get.exp.stat() returns all-NA min.lfc when pairwise logFC contains partial NAs

  Danko-Lab/BayesPrism#128 · Filter by author Zzzweiguang opened on Jun 20, 2026

• Is batch correcting counts necessary while constructing the scRNA-seq reference?

  Danko-Lab/BayesPrism#127 · Filter by author kkkaslikar opened on Mar 9, 2026

• BayesPrism results from your GBM tutorial

  Danko-Lab/BayesPrism#125 · Filter by author LoaiNaom opened on Dec 15, 2025

• Gibbs samples

  Danko-Lab/BayesPrism#123 · Filter by author jdm204 opened on Nov 24, 2025

• How to extract the reference signature matrix?

  Danko-Lab/BayesPrism#122 · Filter by author ievarau opened on Sep 17, 2025

• Differential analysis on deconvolved cell type expression

  Danko-Lab/BayesPrism#121 · Filter by author ishagd opened on Sep 5, 2025
  2

• Error in checkForRemoteErrors(val)

  Danko-Lab/BayesPrism#120 · Filter by author fuzh25 opened on Jun 11, 2025
  4

• could not find function "rdirichlet"

  Danko-Lab/BayesPrism#119 · Filter by author sby2019thu opened on May 19, 2025
  8

• question on embedded learning

  Danko-Lab/BayesPrism#118 · Filter by author fanying2015 opened on May 12, 2025
  2

• Question on gene filtering for correlation between malignant cell expression and query cell type fraction

  Danko-Lab/BayesPrism#117 · Filter by author fanying2015 opened on May 12, 2025
  3

• Question about using BayesPrism with TCGA bulk data and 5'/3' single-cell references

  Danko-Lab/BayesPrism#116 · Filter by author Rapamycin-s opened on May 1, 2025
  3

• Question regarding Cell Type-Specific Gene Expression Matrix (Z) from BayesPrism

  Danko-Lab/BayesPrism#115 · Filter by author max5iu opened on Apr 21, 2025
  1

• Stuck at "Update the reference matrix ..." for over 10 days

  Danko-Lab/BayesPrism#114 · Filter by author shaddock-123 opened on Apr 14, 2025

• Question about integrated samples and cell states labelling

  Danko-Lab/BayesPrism#112 · Filter by author tetsy2 opened on Mar 20, 2025
  1

• dgCMatrix Support for get.exp.stat function

  Danko-Lab/BayesPrism#110 · Filter by author Cosmic1Neko opened on Jan 13, 2025

• Can the TCGA bulk RNA-seq data be dissected using only macrophage subsets ?

  Danko-Lab/BayesPrism#109 · Filter by author gloriafight opened on Jan 10, 2025
  4

• Inaccurate pseudobulk deconvolution with raw counts

  Danko-Lab/BayesPrism#105 · Filter by author emmanuelmekasha opened on Nov 5, 2024
  1

• Can I used BayesPrism to perform deconvolution on the microarray results by the scRNAseq reference

  Danko-Lab/BayesPrism#96 · Filter by author ZhijieHanbioinfor opened on Aug 15, 2024
  3

• Re-input the result into the seurat object

  Danko-Lab/BayesPrism#94 · Filter by author JaneeeeeeW opened on Jul 25, 2024
  1

• Question and suggestion for running with large bulk sample set

  Danko-Lab/BayesPrism#92 · Filter by author FGOSeal opened on Jul 10, 2024
  1

• Using selected cell type markers can't improve the accuracy

  Danko-Lab/BayesPrism#91 · Filter by author sherry1000001 opened on Jun 24, 2024
  1

• Using known cell type fractions

  Danko-Lab/BayesPrism#90 · Filter by author oriolpich opened on Jun 19, 2024
  9

• Mouse or human (?) for option "species"

  Danko-Lab/BayesPrism#89 · Filter by author yingzhang121 opened on Jun 17, 2024
  1

• gene names of reference and mixture do not match!

  Danko-Lab/BayesPrism#87 · Filter by author rmontagn opened on May 31, 2024
  5

• Discrepancies Between matched Single-cell and Bulk Transcriptome Samples

  Danko-Lab/BayesPrism#86 · Filter by author Rui-Jing opened on May 24, 2024
  1