Issues

• Pip installation does not include the refinement modules

  broadinstitute/Tangram#148 · Filter by author CharlineJnnt opened on Oct 9, 2026

• dependency versions (anndata)

  broadinstitute/Tangram#144 · Filter by author brainfo opened on Dec 29, 2025
  1

• density prior logic bug in map_cells_to_space

  broadinstitute/Tangram#143 · Filter by author brainfo opened on Dec 29, 2025

• How do you get the .obsm['proportions_class'] in MOp Visium dataset?

  broadinstitute/Tangram#142 · Filter by author sarahshuang opened on Nov 26, 2025

• How to define img / uns["spatial"] for Xenium data

  broadinstitute/Tangram#140 · Filter by author Sophielsn opened on Oct 1, 2025

• quick fix fr numpy>1.24

  broadinstitute/Tangram#139 · Filter by author lopollar opened on Sep 29, 2025

• fit for hd and xenium

  broadinstitute/Tangram#138 · Filter by author asmlgkj opened on Sep 3, 2025
  2

• Cannot import name 'find_stack_level' from 'pandas.util._exceptions'

  broadinstitute/Tangram#137 · Filter by author lh12565 opened on Aug 21, 2025

• Missing packages squidpy and `libpysalz after fresh install of current master

  broadinstitute/Tangram#135 · Filter by author fbnrst opened on Jul 17, 2025
  2

• How to test mapping quality of mode = 'cluster'?

  broadinstitute/Tangram#134 · Filter by author lindaboshans opened on Jul 10, 2025

• It's stuck here and keeps running. （map_cells_to_space）

  broadinstitute/Tangram#133 · Filter by author 1liuchunlong opened on Jun 18, 2025
  6

• Question regarding spatial sparsity for TMA's

  broadinstitute/Tangram#132 · Filter by author Zach-Sten opened on Mar 7, 2025

• Non-spatial scRNA-Seq dataset from FACS-sorted population

  broadinstitute/Tangram#130 · Filter by author PietroD opened on Feb 17, 2025

• Question about 'tangram_ct_pred' results for final cell type annotation call

  broadinstitute/Tangram#129 · Filter by author KunHHE opened on Jan 15, 2025

• Downstream analysis using ad_ge

  broadinstitute/Tangram#128 · Filter by author capuddddd opened on Jan 14, 2025
  1

• ad_map data: var ('cell_type') added after the training in the merfish data frame, but it's 'NA'

  broadinstitute/Tangram#127 · Filter by author KunHHE opened on Dec 31, 2024
  4

• How to know each single cell spatial location after mapping?

  broadinstitute/Tangram#125 · Filter by author Changzhanhe opened on Nov 19, 2024
  1

• Question regarding n_genes_by_counts

  broadinstitute/Tangram#124 · Filter by author KyrosWang opened on Sep 12, 2024

• Possible mistakes in the "Tangram under the hood" page in documentation website

  broadinstitute/Tangram#123 · Filter by author shashkat opened on Jun 30, 2024

• plot_auc does not work

  broadinstitute/Tangram#122 · Filter by author asmlgkj opened on Jun 14, 2024
  5

• Running time for Tangram

  broadinstitute/Tangram#120 · Filter by author annaminyifeng opened on May 23, 2024
  2

• Please explain project_cell_annotations

  broadinstitute/Tangram#119 · Filter by author atharva-bhagwat opened on Apr 17, 2024

• Sparsity_sc and sparsity_sp = 0

  broadinstitute/Tangram#118 · Filter by author gboscagli opened on Apr 16, 2024
  1

• Using Integrated single cell data for alignment

  broadinstitute/Tangram#116 · Filter by author abhishekmaj08 opened on Mar 19, 2024

• Tangram Deconvolution

  broadinstitute/Tangram#115 · Filter by author abhishekmaj08 opened on Mar 4, 2024
  1