drieslab/Giotto

Issues

• Can't identify leidenalg

  #811 opened 4 months ago by xiangmingcai
  6

• plotRankSpatvsExpr errors with an unused argument

  #912 opened 4 months ago by rbutleriii
  1

• getting error while using osmFISH Mouse SS Cortex tutorial

  #875 opened 4 months ago by shakesber89
  11

• CosMx image data not loading with createGiottoLargeImage()

  #859 opened 4 months ago by Viggywuzheer
  1

• cellProximityEnrichment() gforce error probably due to insufficient memory

  #901 opened 5 months ago by hchoiHiLung
  0

• Unable to download mini-seqFISH data

  #752 opened 5 months ago by MomenehForoutan
  4

• New tutorials issue

  #838 opened 5 months ago by rbutleriii
  3

• createGiottoXeniumObject `path_list` not found error

  #888 opened 5 months ago by hchoiHiLung
  0

• could not find function "set_giotto_python_path"

  #809 opened 5 months ago by xiangmingcai
  2

• Interactive selection tutorial needs more steps to have a saveable object with cosmx

  #880 opened 5 months ago by rbutleriii
  1

• seuratToGiotto - conversion error

  #766 opened 9 months ago by perineuronal
  6

• CosMx mini dataset cannot reconnect images

  #865 opened 5 months ago by rbutleriii
  3

• Re-saving gobj with overwrite breaks gobj

  #870 opened 5 months ago by rbutleriii
  0

• could not find function "."

  #812 opened 7 months ago by xiangmingcai
  0

• Spots does not align across tissue

  #854 opened 5 months ago by RolantusdataExp
  1

• Installation error on CentOS cluster

  #839 opened 5 months ago by rbutleriii
  8

• Nanostring CosMx and AtoMx exported data

  #785 opened 8 months ago by jmodlis
  0

• addCellMetadata performs an unexpected sort

  #853 opened 5 months ago by rbutleriii
  4

• Heatmap functions produce thumbnail image instead of normal size

  #861 opened 5 months ago by rbutleriii
  1

• Modules not found while running createGiottoCosMxObject

  #704 opened a year ago by ivan108
  1

• Unable to Download Giotto Suite from Github

  #844 opened 6 months ago by u-gom-a
  2

• Issue with heatmap

  #747 opened 6 months ago by shakesber89
  2

• Error in generating visium object in Giotto in R studio : Object 'visium_png' not found

  #807 opened 7 months ago by hndyilm
  2

• Interactive Selection in Giotto

  #810 opened 7 months ago by hndyilm
  2

• Error in running interactive seelction in R studio : Object of type 'S4' cannot be indexed

  #805 opened 7 months ago by hndyilm
  2

• H&E-stain does not align with capturing area

  #808 opened 7 months ago by RolantusdataExp
  1

• loadGiotto() in updated Giotto package can't load the data saved using the older version of Giotto

  #793 opened 7 months ago by MomenehForoutan
  0

• Error when running runDWLSDeconv

  #786 opened 8 months ago by martina-boop
  2

• Failed to identify T cells in Visium data

  #774 opened 8 months ago by vwtlin
  2

• Can giotto/SpatialDWLS report the estimated transcriptomes of the identified cell types

  #787 opened 8 months ago by Dillon214
  0

• About using FDR in heatmap

  #751 opened 10 months ago by Pedramto89
  3

• Error in validObject(.Object)

  #698 opened a year ago by krigia
  2

• SeuratTogiotto for Single Cell Data

  #761 opened 9 months ago by tsoruu
  0

• Error converting Giotto to Seurat object

  #749 opened 10 months ago by jennie-ui
  1

• No giottoImages have been found after seuratToGiotto()

  #758 opened 9 months ago by cjhong
  0

• PCA percentage of variance explained is wrong

  #750 opened 10 months ago by lambdamoses
  1

• Enhance the interaction changed gene plot

  #738 opened 10 months ago by adamdingliang
  0

• Error in dimnames(x) <- dn : 'dimnames' applied to non-array in joinGiottoobject

  #721 opened a year ago by hndyilm
  14

• Need assintance with New issue with Giootto 10 X Xenium Data.

  #736 opened 10 months ago by shakesber89
  7

• Request for assistance with Giotto Xenium data.

  #701 opened a year ago by shakesber89
  3

• Error in makeSignMatrixDWLSfromMatrix (from Vignette)

  #711 opened a year ago by Hanxi-002
  1

• Xenium tutorials xenium_breast_cancer do not produce the same output

  #727 opened 10 months ago by terrytas
  3

• Functions related to data table

  #734 opened 10 months ago by Huimin721
  6

• findICFSpot crashes with rare cell types in do_permuttest_random_spot

  #731 opened a year ago by lima1
  0

• When the python_path argument is supplied, Giotto still reverts to the default system python path

  #705 opened a year ago by cgaray-p4
  0

• doHMRF - segmentation fault

  #699 opened a year ago by josicb16
  3

• Error in dimnames(x) <- dn : 'dimnames' applied to non-array in joinGiottoobject

  #696 opened a year ago by hndyilm
  0

• Run normalization across multiple samples

  #692 opened a year ago by krigia
  1

• create giotto object and spatPlot

  #691 opened a year ago by kguion1
  0

• cellcell interaction question

  #684 opened a year ago by chrkuo
  4