kstreet13/slingshot

Issues

• Function slingshot no possibility to create graph

  #257 opened a month ago by Capiques
  1

• how to use slingshot_conditions on PCA and visualization on UMAP

  #255 opened 3 months ago by TongzhenXu
  5

• Cell-type cluster split by pseudotimes

  #256 opened 3 months ago by benwinog
  2

• Can I use more than two dimensions as the input for Slingshot?

  #254 opened 4 months ago by zczali4403
  3

• [Question] Is there any way to force a single trajectory/disable splitting?

  #253 opened 4 months ago by yashuap
  3

• confusion about the end of a lineage

  #252 opened 4 months ago by Dooozy
  1

• Slingshot package ------ Error in crossprod(out) : "crossprod" is not BUILTIN function

  #251 opened 5 months ago by yolo177
  1

• What does a curve represent biologically?

  #243 opened 5 months ago by jjia1
  7

• Error: (converted from warning) useNames = NA is deprecated. Instead, specify either useNames = TRUE or useNames = FALSE.

  #250 opened 5 months ago by Ztxfrhhyy
  1

• Error while plotting the Minimum Distances Between Cell-Type Centroids using Slingshot in r

  #249 opened 5 months ago by HappinessEricst
  6

• Slingshot error

  #248 opened 7 months ago by Leoarie-lab
  1

• Error running slingshot: system is computationally singular

  #210 opened a year ago by sopenaml
  3

• pseudotime in two lineage？

  #247 opened 7 months ago by handesome
  2

• Error in graph.adjacency.dense: Adjacency matrix should be symmetric to produce an undirected graph. Invalid value

  #246 opened 7 months ago by erzakiev
  5

• Overlapping curve issue - change to code needed?

  #244 opened 8 months ago by crist156
  3

• Removing a lineage from a `PseudotimeOrdering` object?

  #245 opened 8 months ago by Dazcam
  3

• How do I extract feature_info in my rds file?

  #242 opened 9 months ago by Saumya513
  4

• Pick one lineage from many for conditiontest

  #241 opened 9 months ago by TdzBAS
  3

• is slingshot using only the variable genes?

  #240 opened 9 months ago by TdzBAS
  2

• How Slingshot work on 90000 number of nuclei?

  #228 opened 10 months ago by pariaaliour
  6

• getCurves() Missing values

  #230 opened 10 months ago by msclz
  8

• Curves and lineages

  #231 opened 10 months ago by Ahmedalaraby20
  3

• Average curve weights and Pseudotime

  #233 opened 10 months ago by ayyildizd
  1

• slingshot analysis on PCA but visualization on UMAP

  #234 opened 10 months ago by TdzBAS
  3

• how to analyze with 3 different treatments

  #235 opened 10 months ago by AndreaYCT
  4

• how to calclate the POS to compare other algorithm?

  #236 opened 10 months ago by handesome
  2

• Slingshot followed by CellRank

  #239 opened 10 months ago by Yanst86
  1

• `embedCurves` should also map MST into new space

  #238 opened 10 months ago by Yunuuuu
  1

• Warning messages useNames = NA is deprecated when running the slingshot

  #221 opened a year ago by xuesen07
  13

• Error in igraph::shortest_paths(tree, from = l, to = ends, mode = "out", : At core/paths/dijkstra.c:360 : Weight vector must not contain NaN values, Invalid value

  #232 opened a year ago by abulislam
  3

• Pulling and plotting Differential pseudotime data across different conditions/metadata slots

  #237 opened a year ago by Yanst86
  1

• Is there any way that I could fit the NB-GAM for all the gene in my large dataset?

  #229 opened a year ago by pariaaliour
  1

• How to use times parameter to inform about real time while not using clusterLabels

  #226 opened a year ago by rosshandler
  2

• is it possible to set multiple start clusters in slingshot

  #225 opened a year ago by hua1991
  1

• Predicting cells belonging to two lineages constructed using two subsetted objects

  #223 opened a year ago by Tommy0398
  5

• Error while running getLineages()

  #216 opened 2 years ago by aditisk
  4

• unexpected behaviour when specifying the start cluster

  #227 opened a year ago by aaronkwong
  2

• Error in brewer_pal("qual", "Set2")

  #224 opened a year ago by apal6
  2

• Error in h(simpleError(msg, call))

  #222 opened a year ago by handesome
  2

• Assign Seurat Colors to Slingshot plot

  #219 opened a year ago by deepdiver25
  3

• Trajectories behaving strangely using two different approaches

  #220 opened a year ago by Tommy0398
  3

• slingshot plot(reducedDim(sds) error

  #218 opened 2 years ago by gebdu
  1

• Unable to plot lines

  #217 opened 2 years ago by SebastianMHJohn
  2

• Increase the number of branching points

  #215 opened 2 years ago by astrid12345
  2

• Map cells onto existing trajectory?

  #213 opened 2 years ago by lucygarner
  3

• Plotting MST In UMAP Space

  #214 opened 2 years ago by connerlambden
  2

• What is the exact meaning of Lineage？

  #212 opened 2 years ago by Siteng999
  3

• Calculating on PCs + Plotting On UMAP

  #211 opened 2 years ago by connerlambden
  4

• How to plot the pseudotime for all lineages together in one UMAP plot?

  #209 opened 2 years ago by xx789
  3

• Running Multiple Times Results In Some Cells Not Plotting

  #208 opened 2 years ago by connerlambden
  3