jinworks/CellChat

Issues

• devtools::install_github("jinworks/CellChat")

  #280 opened 8 days ago by chenzhe-tj
  0

• computeCommunProb: Error in nn.ranked[idx.i, ] : subscript out of bounds

  #236 opened 3 months ago by strawberry098
  5

• Excluding communications

  #279 opened 9 days ago by samguttr
  0

• Issues installing

  #277 opened 9 days ago by samguttr
  2

• Different color of the same signal when plot all signals vs one signal in bubble plot

  #278 opened 10 days ago by Chrisdoan9
  2

• netVisual_heatmap for certain pathways on merged object

  #276 opened 12 days ago by JaneChik
  2

• Minor suggestion on spatialFeaturePlot()

  #274 opened 15 days ago by mvfki
  1

• netClustering Error

  #235 opened 3 months ago by GischD
  2

• Data exported from rankNet do not correspond to the plot info

  #273 opened 16 days ago by carolgirardi
  2

• How do you handle merging samples across different tissue arrays, leading to redundant coordinates?

  #249 opened 2 months ago by AmosFong1
  4

• Error when use default CellChatDB

  #275 opened 14 days ago by Mollyx06
  1

• running the computeCommunProb function. got the error message: Error in integer(n) : invalid 'length' argument

  #243 opened 2 months ago by Xingsongli
  1

• Warning when running computeCommunProb NAs produced by integer overflow

  #250 opened 2 months ago by Rayan21100
  2

• Could you please provide all the GENES involved in CellChat calculation?

  #256 opened 15 days ago by grimwoo
  2

• Could we get all genes in a pathway listed in cellchat@netP$pathways?

  #268 opened 24 days ago by Chrisdoan9
  2

• Bug: Error in mat[, col.show] : incorrect number of dimensions in netVisual_heatmap

  #270 opened 16 days ago by emmanuel-contreras
  2

• Help to understand how signals grouped base on similar functionality

  #272 opened 17 days ago by Chrisdoan9
  4

• DimPlot does not show in the Shiny app for spatial CellChat object

  #241 opened 2 months ago by pcantalupo
  1

• Subsetting Cellchat

  #251 opened 2 months ago by Rayan21100
  1

• Cellchat result robustness visium vs snRNA-seq

  #263 opened 16 days ago by Chrisdoan9
  1

• BUG, netVisual_aggregate(layout = "spatial") not proper for 2 nodes network

  #252 opened 2 months ago by gnilihzeux
  1

• Autocrine interactions can not show on the spatial plots when using netVisual_aggregate

  #254 opened 2 months ago by liuxiaZzz
  1

• netVisual_bubble parameter: slot.name

  #255 opened 2 months ago by martab0t
  1

• Potential Error in DHEAS Signaling Pathway Interactions in CellChatDB

  #257 opened a month ago by aboutfanfan
  1

• Error in netVisual_bubble on LR pairs detected in only part groups

  #258 opened a month ago by XiangyuYe
  1

• Error with `future` package integration

  #260 opened a month ago by lict99
  1

• signaling.name is working with netVisual_aggregate but is not with netVisual_individual

  #264 opened a month ago by CroixJeremy2
  1

• Question about statistical significance in netVisual_heatmap

  #266 opened a month ago by 827-wondering
  1

• Issue with umap-learn

  #267 opened 25 days ago by joaolm01
  1

• Error when running identifyOverExpressedGenes()

  #269 opened 21 days ago by JosieCen
  1

• SelectK Error with Packages

  #271 opened 18 days ago by zacharyjxy2020
  1

• filter out small communication signal

  #265 opened 24 days ago by synatkeamsk
  1

• Error in createCellChat(object = data.input, meta = meta, group.by = "labels", : spatial.factors with colnames `ratio` and `tol` should be provided!

  #262 opened a month ago by Chrisdoan9
  1

• Error in createCellChat(object = data.input, meta = meta, group.by = "labels", : unused argument (scale.factors = scale.factors)

  #261 opened a month ago by Chrisdoan9
  2

• Different cellchat result at sample level

  #240 opened 2 months ago by Chrisdoan9
  2

• Error when running netVisual_circle()

  #259 opened a month ago by JosieCen
  1

• fail to install cellChat with install_github() and error: didn't find libc++ <stddef.h> header

  #248 opened 2 months ago by ecolip
  1

• Interpretation of netVisual_bubble in DEA of merged cellchat data

  #247 opened 2 months ago by bapoorva
  0

• Include databases broader than L-R interactions

  #246 opened 2 months ago by jgarces02
  0

• Error with netVisual_aggregate in spatial data

  #245 opened 2 months ago by yuiko-chan
  0

• Multiple spatial datasets comparison from

  #242 opened 2 months ago by jvogenstahl
  0

• Why a pattern didn't show on the right of river plot

  #239 opened 3 months ago by Chrisdoan9
  2

• how to obtain the visium_mouse_cortex_annotated_full.RData in the Spatial vignette?

  #238 opened 3 months ago by pcantalupo
  2

• Help with interpreting netP_object$prob

  #237 opened 3 months ago by Chrisdoan9
  1

• runCellChatApp error and question about multi samples

  #234 opened 3 months ago by jiw181
  0

• Error: Could not find tools necessary to compile a package

  #233 opened 3 months ago by lexie-lee
  1

• number of interactions mismatch with differential interactions between groups

  #232 opened 3 months ago by yulchen810
  0

• rankNet error

  #231 opened 3 months ago by vma201620
  0

• The spatial location is incorrect

  #229 opened 3 months ago by solivehong
  1

• could not find function "projectData"

  #228 opened 3 months ago by yulchen810
  2