SONGDONGYUAN1994/scDesign3

Issues

• Simulate scRNA-seq data with varying number of cells and/or sequencing depth on scDesign3

  #60 opened 4 months ago by ShuyangNie
  0

• Simulate spatial dataset with several batches

  #59 opened 4 months ago by VivLon
  2

• Benchmarking SVG Methods: equal mean parameters

  #58 opened 4 months ago by kinnaryshah
  2

• Copula fit not reproducible when using pbmcmapply option

  #57 opened 4 months ago by chrisycd
  0

• Long runtime for simulating spatial data

  #22 opened a year ago by yollct
  14

• Questions of gaussian family

  #56 opened 5 months ago by TBW108
  4

• Generate new data given labels

  #53 opened 6 months ago by feng-bao-ucsf
  13

• Error when running example

  #44 opened 7 months ago by yiranzhimo
  2

• Howt to generate spatially invariant genes

  #43 opened 8 months ago by rocketeer1998
  5

• Simulation from bulk RNA-seq

  #41 opened 8 months ago by zji90
  2

• BiocParallel error in Simulate spot-resolution spatial data for cell-type deconvolution

  #30 opened a year ago by RadishTheVeggie
  1

• mc.cores > 1 not supported on windows

  #29 opened a year ago by lucas02061
  2

• no applicable method for 'family' applied to an object of class "NULL"

  #10 opened a year ago by minghong
  6

• Error when simulating spatial transcriptomics data for benchmarking DE genes

  #13 opened a year ago by ttgump
  1

• Error when setting `ncell` with a continuous convariate

  #20 opened a year ago by lazappi
  1

• Can we use total gene single cell data to generate the simulated spatial data

  #24 opened a year ago by xiangpin
  1

• A question about simulating multi-omic data from single-omic data

  #23 opened a year ago by HelloWorldLTY
  2

• GAMLSS warnings during marginal fitting

  #21 opened a year ago by cpuritz
  2

• Error when simulating batch effects and library size

  #19 opened a year ago by lazappi
  2

• Best way to simulate noise

  #18 opened a year ago by Zethson
  2

• Question on setting batch effect strength

  #17 opened a year ago by XiaPoppy
  1

• possibility to know the cell type if I manually set the ncell parameter

  #16 opened a year ago by XiaPoppy
  2

• Totally SAME count matrix(generated) compared to the reference data

  #14 opened a year ago by XiaPoppy
  4

• Error in as.data.frame.default(x[[i]], optional = TRUE)

  #15 opened a year ago by Dana162001
  5

• A bug existing in the example code

  #12 opened 2 years ago by HelloWorldLTY
  2

• attempt to set an attribute on NULL error when running scdesign3()

  #11 opened 2 years ago by XiaPoppy
  7

• Error while simulating spot-resolution spatial data for cell-type deconvolution

  #9 opened 2 years ago by sumeer1
  1

• Simulate batch effect and condition effect simutaneously.

  #8 opened 2 years ago by yujias424
  3

• Issue with adjusting for library size

  #7 opened 2 years ago by emucaki
  3

• Copula model underfitting

  #6 opened 2 years ago by RoseYuan
  1

• Out-of-memory issue

  #5 opened 2 years ago by marvinquiet
  1

• camelCase Bioconductor Convention is Not Used

  #4 opened 2 years ago by DarioS
  2

• simulating a 2000cell*150000peak scATAC

  #3 opened 2 years ago by Chen-Li-17
  2