Discussions

• 1 You must be logged in to vote

  🙏

  When analyzing SMARTseq2 (iCell8) data using Seurat should one use TPM?

  nikofleischer asked Feb 16, 2022 in Q&A · Unanswered

  

  

  2
• 1 You must be logged in to vote

  🙏

  How to remove genes/features with accession prefixes

  mlawre asked Apr 18, 2024 in Q&A · Unanswered

  

  

  1
• 1 You must be logged in to vote

  💬

  Difference in cell cycle assignment by Seurat v4 and Seurat v5

  simang5c started Apr 25, 2024 in General

  

  

  0
• 3 You must be logged in to vote

  🙏

  Fixed RNA Profiling data analysis

  yguillen asked Oct 4, 2022 in Q&A · Unanswered

  

  

  1
• 1 You must be logged in to vote

  🙏

  No "integrated" assay after running CCA integration on an SCTransformed object

  NicoHadas asked Apr 22, 2024 in Q&A · Unanswered

  

  

  0
• 1 You must be logged in to vote

  🙏

  DotPlot using split.by condition - avg expression bar disappears

  yonlada-nawilai asked Apr 22, 2024 in Q&A · Unanswered

  

  

  0
• 1 You must be logged in to vote

  🙏

  DEGs difference between Seurat v5 and Seurat v4?

  Shuresearcher asked Apr 20, 2024 in Q&A · Unanswered

  

  

  0
• 1 You must be logged in to vote

  🙏

  Mapping a query dataset with new cell types with a labeled reference

  ashcpie asked Apr 19, 2024 in Q&A · Unanswered

  

  

  0
• 3 You must be logged in to vote

  🙏

  Issue with Missing Dimnames and Assay Class Change in Seurat v5.0.1

  qingmemng asked Dec 28, 2023 in Q&A · Unanswered

  

  

  

  

  12
• 1 You must be logged in to vote

  🙏

  Excluding T cell receptor genes from Seurat object or integrated Seurat object?

  nilsrudqvist asked Jun 28, 2022 in Q&A · Unanswered

  

  

  1
• 1 You must be logged in to vote

  🙏

  Analysis with more than two groups

  hagarmorad asked Apr 17, 2024 in Q&A · Unanswered

  

  

  0
• 1 You must be logged in to vote

  🙏

  FindMarkers reporting different genes in v5 / backwards compatibility of seurat object?

  mahogny asked Dec 27, 2023 in Q&A · Answered

  

  

  

  

  7
• 1 You must be logged in to vote

  🙏

  Potential Batch Biases in FindMultiModalNeighbors() with Corrected Embeddings

  mreza-ef asked Apr 16, 2024 in Q&A · Unanswered

  

  

  0
• 1 You must be logged in to vote

  🙏

  Including "counts" dataset in conversion to AnnData

  roussine asked Apr 12, 2024 in Q&A · Unanswered

  

  

  0
• 1 You must be logged in to vote

  🙏

  LoadVizgen z-index segmentations vs. detected transcripts

  brunogegenhuber asked Apr 12, 2024 in Q&A · Unanswered

  

  

  0
• 1 You must be logged in to vote

  🙏

  Ensmble IDs to gene name

  ShwethaRaghunathan asked Feb 3, 2023 in Q&A · Unanswered

  

  

  1
• 1 You must be logged in to vote

  🙏

  subset() returns error in version 5.0

  miuraTakashi asked Apr 12, 2024 in Q&A · Unanswered

  

  

  0
• 3 You must be logged in to vote

  🙏

  How do we identify conserved cell type markers after SCTransform - IntegrateLayers in Seurat 5?

  greengeckoruns asked Apr 8, 2024 in Q&A · Unanswered

  

  

  1
• 1 You must be logged in to vote

  🙏

  Integrating Spatial Data with scRNA Seq Data Considerations

  angie-john asked Apr 5, 2024 in Q&A · Closed · Unanswered

  

  

  0
• 1 You must be logged in to vote

  🙏

  Storing a custom dimensional reduction Seurat v5

  mrmxhmd asked Apr 4, 2024 in Q&A · Unanswered

  

  

  0
• 1 You must be logged in to vote

  🙏

  How to outline Seurat clusters in black?

  yamihn asked Apr 5, 2024 in Q&A · Unanswered

  

  

  0
• 2 You must be logged in to vote

  🙏

  Seurat V5 - var.features

  Dooo0k asked Dec 21, 2023 in Q&A · Unanswered

  

  

  6
• 1 You must be logged in to vote

  🙏

  Reference map vs batch correction vs both

  MarieWangBioinformatics asked Apr 4, 2024 in Q&A · Unanswered

  

  

  0
• 4 You must be logged in to vote

  🙏

  Error unable to aggregate TsparseMatrix when integrating large datasets

  Ferris01 asked Nov 30, 2023 in Q&A · Unanswered

  

  

  

  

  2
• 2 You must be logged in to vote

  💬

  IntegrateLayers() function cannot handle non-zero counts larger than 2^31-1

  Qinmengge started Apr 4, 2024 in General

  

  

  0