cole-trapnell-lab monocle-release issues

cole-trapnell-lab / monocle-release

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Repoer error when run plot_pseudotime_heatmap in monocle2, call for help.

#519 JWDu0122 opened 2 days ago
0
Error in orderCells: 'from' contains NAs

#518 rblame opened 3 weeks ago
9
error installing Monocle3 in R4..4

#517 sanskritidey opened 1 month ago
0
monocle2 result is not reproducible!

#516 hieunguyen4193 opened 2 months ago
3
Issue with estimateDispersions()

#515 aeg06 opened 2 months ago
0
Error for importCDS function

#514 hx07-code opened 2 months ago
0
difference between expressionFamily = uninormal() and expressionFamily=negbinomial.size()

#513 yuanG2000 opened 2 months ago
0
Error in if (progenitor_method == "duplicate") { : the condition has length > 1

#512 duan513 opened 2 months ago
0
not understanding max_components arg in reduceDimension() and how it impacts visualisation plot

#511 klai001 opened 5 months ago
0
View(cds)Error in warn_version(graph) : This graph was created by a now unsupported old igraph version. Call upgrade_graph() before using igraph functions on that object.

#510 peibana opened 5 months ago
6
BEAM_error

#509 kerwin223 opened 6 months ago
1
BEAM Error

#508 fightingevery opened 6 months ago
3
Eroor to install monocle v2

#507 sanskritidey opened 7 months ago
1
Error in as.igraph.vs(graph, to) : Invalid vertex names

#506 LiHangzls opened 7 months ago
1
reload cds cause error.

#505 shanshenbing opened 9 months ago
1
Extract gene list in the order plotted on heatmap by plot_pseudotime_heatmap

#504 shabs24 opened 9 months ago
2
ordercells function error for large datasets

#503 qimiaonnegliguo opened 12 months ago
0
Prepare for upcoming Seurat v5 release

#502 saketkc opened 12 months ago
0
Unable to plot gene based on ordered input genes with plot_genes_in_pseudotime

#501 Quianter opened 1 year ago
0
Error: unable to coerce from TsparseMatrix to [CR]sparseMatrixwhen length of 'i' slot exceeds 2^31-1

#500 abulislam opened 1 year ago
1
Error when running reduceDimension

#499 sejjer7 opened 1 year ago
1
Error in plot_rho_delta(Fibroblast.subgroup, rho_threshold = 2, delta_threshold = 4) : Please run clusterCells_Density_Peak before using this plotting function

#498 YKH810325 opened 1 year ago
0
Error in degree(dp_mst, v = parent_node_name) : unused argument (v = parent_node_name)

#497 Noralii opened 1 year ago
1
plot_genes_branched_heatmap is stuck

#496 myshu2017-03-14 opened 1 year ago
0
Unable to convert Seurat object to Monocle object Monocle3, as.cell_data_set function broken?

#495 s4rivera opened 1 year ago
0
Changing units on pseudotime analysis

#494 alicerlam opened 1 year ago
0
The question for input genes?

#493 xiasijian opened 1 year ago
0
traverseTree function in monocle2 origins from which R package?

#492 junjunlab opened 1 year ago
0
traverseTree function in monocle2 origins from which R package?

#491 junjunlab opened 1 year ago
0
Pseudotime trajectory analysis not working, throwing error.

#490 ruchikabhat closed 1 year ago
3
Cell type annotations unknown

#489 cathalgking opened 1 year ago
0
Differential gene results are inconsistent between local and singularity environments running on the same server

#488 myshu2017-03-14 opened 1 year ago
0
learn_graph works for monocle3_partitions==1 but not for monocle3_partitions==2

#487 xyang2uchicago opened 1 year ago
0
Error in if (isSparseMatrix(counts)) { : the condition has length > 1 Calls: subMonocle2 ... estimateSizeFactors -> .local -> estimateSizeFactorsForMatrix

#486 weihuaguo opened 1 year ago
7
estimateDispersions() can not work

#485 Siteng999 opened 1 year ago
4
can not get heatmap by run this code plot_genes_branched_heatmap

#484 mianmianyin opened 1 year ago
0
Can not create a CellDataSet object

#483 Jingle0814 opened 1 year ago
5
Different trajectory plots in different runs

#482 drroya opened 1 year ago
3
num_clusters issue in clusterCells function

#481 aowisc opened 2 years ago
0
relative2abs Nan

#480 sangmm12 opened 2 years ago
0
Plot genes in pseudo time with Seurat

#479 brookeabrown opened 2 years ago
1
Assigning clusters to monocle object

#478 AdamLaang closed 2 years ago
1
What does function lowerDetectionLimit() do?

#477 topafzd opened 2 years ago
0
orderCells

#476 chrismahony opened 2 years ago
4
Error：Error in vcount(x) : REAL() can only be applied to a 'numeric', not a 'NULL'

#475 CJSCI666 opened 2 years ago
7
orderCells and num_paths

#474 chrismahony opened 2 years ago
0
Compatibility with R 4.2

#473 DarwinAwardWinner opened 2 years ago
0
plot_genes_branched_pseudotime and beam not working

#472 joelma1 opened 2 years ago
7
No "annotation_row" when no "cluster_rows" ?

#471 Christina-hshi opened 2 years ago
0
Error in value[[3L]](cond) : Error in model formula: missing values and NaN's not allowed if 'na.rm' is FALSE

#470 EAC-T opened 2 years ago
1