satijalab seurat Discussions

Discussions

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  Analysis of spatial datasets question

  chopwoods asked Mar 30, 2023 in Q&A · Unanswered

  

  

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  Integration across different conditions of multiomic seurat objects

  Onero23 asked Feb 3, 2021 in Q&A · Answered

  

  

  

  

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  t-SNE, dim.embed=3

  Lea2609 asked Mar 30, 2023 in Q&A · Unanswered

  

  

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  How to get subset of a Seurat object based on metadata?

  Sunyp-IM asked Mar 29, 2023 in Q&A · Unanswered

  

  

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  How to calculate the correlation between the expression levels of two genes (features) ?

  Sunyp-IM started Mar 23, 2023 in General

  

  

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  Coverage plot for multiome data

  shamimaTU asked Mar 23, 2023 in Q&A · Unanswered

  

  

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  How to plot UMAP with custom labels?

  MasonDou asked Feb 19, 2023 in Q&A · Unanswered

  

  

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  Questions about the intepretation - integration of spatial datasets with single-cell data

  gmoralest asked Mar 20, 2023 in Q&A · Unanswered

  

  

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  DEenrichRPlot error

  sghoshuc asked Mar 18, 2023 in Q&A · Unanswered

  

  

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  RunUMAP parameter umap.method = umap-learn can't be execuated

  tufeiyinjie asked Mar 14, 2023 in Q&A · Unanswered

  

  

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  Manually providing anchors for integrating datasets.

  scachero asked Mar 10, 2023 in Q&A · Unanswered

  

  

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  R session aborted when load Seurat

  LIPEISHAO asked Feb 7, 2023 in Q&A · Unanswered

  

  

  

  

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  FindNeighbors function get error

  LitalBarak96 asked Dec 6, 2022 in Q&A · Unanswered

  

  

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  Seurat DotPlot function for conserved cell markers: Error in intI(j, n = d[2L], dn[[2L]], give.dn = FALSE) : invalid character indexing

  rynne94 asked Mar 6, 2023 in Q&A · Unanswered

  

  

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  how can transform image 1 to image 2? please help me to solve the vlnplot problem,

  ggsimidaa168 asked Feb 25, 2023 in Q&A · Unanswered

  

  

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  Extracting list of barcodes in a UMAP cluster

  zrtehrani asked Jan 30, 2023 in Q&A · Unanswered

  

  

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  project cells onto umap of ucsc cell browser datasets without the umap model

  yesonse asked Jan 19, 2023 in Q&A · Unanswered

  

  

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  Seurat to loupe browser file

  claradelarosa96 asked Feb 7, 2023 in Q&A · Unanswered

  

  

  

  

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  Integration and analysis of multiple end points during experiment

  singcell started Feb 1, 2023 in General

  

  

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  Integrating datasets with multiple biological replicates and multiple conditions?

  ThomasBaardemans asked Mar 7, 2022 in Q&A · Unanswered

  

  

  

  

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  How can I avoid artifacts in gene set/pathway scoring by UCell, "AddModuleScore", "MetaFeatures" etc.?

  Zig-E-Stardust asked Feb 19, 2023 in Q&A · Unanswered

  

  

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  The corrected counts in the SCT slot don't sum up to the same total number of counts across cells

  erzakiev asked Feb 16, 2023 in Q&A · Unanswered

  

  

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  Rename 'images' in Seurat object

  cathalgking asked Feb 15, 2023 in Q&A · Unanswered

  

  

  

  

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  scATAC-seq and scRNA-seq integration issue

  inayat45shaikh asked Oct 14, 2022 in Q&A · Unanswered

  

  

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  Convert SpatialExperiment Object to Seurat Object

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

  

  

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