destiny

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https://github.com/theislab/destiny/blob/48962d2c0ebfc17139e930024b9976e758b023ae/.github/workflows/check-bioc.yml#L284-L290

flying-sheep

Use better ANN library

5

Instead of using my built in cover-tree approximate nearest neighbor lib, new options have popped up: | | [NMSLIB](https://github.com/nmslib/nmslib) | [HNSWLIB](https://github.com/nmslib/hnswlib) | [Annoy](https://github.com/spotify/annoy) | [FALCONN](https://github.com/FALCONN-LIB/FALCONN) | |---|---|---|---|---| | **sparse matrix...

flying-sheep

Is it reasonable to use DiffusionMap with n_pcs = NA?

1

The help page on DiffusionMap says that using e.g. 50 PCs results in more regular looking diffusion maps. First, I would like to ask - it results in more regular...

sam-israel

Segmentation fault with `DiffusionMap`

4

Hi, I am getting a segmentation fault with `DiffusionMap`. I am not changing any of the defaults. 1) When inputting a data matrix as `data`, I get the following error:...

lucygarner

Version issue Matrix package (v1.5-1)

2

Hi developers, I tried running the DiffusionMap() function on the "guo" dummy dataset: ``` data(guo) dm_guo Error: as(, "dsTMatrix") is deprecated since Matrix 1.5-0; do as(., "TsparseMatrix") instead Traceback is...

basielcole

gene_relevance questions 2

2

Hi again, I have couple of questions related to your gene_relevance function. 1) I am not able to find in your vignette how to create a local gene relevance map...

cesarsierran

Hello, thanks for the great tool! I am running into the following error when calling DiffusionMap on a SingleCellExperiment Object: `dif_map

MerRome

color code doesn't work for 3d diffusion map

1

Hi there! Thanks for the package! I'm using destiny to plot a diffusion map from my seurat object. I use the cell cluster names(HSC, B, Neutrophils..) as my color by...

liuweihanty

error when running DPT function

4

command I used: ``` dpt = gmin is not TRUE ``` what is stats$g?

lixin4306ren

Hello! I was wondering if there is a way to map new (supplementary) samples/individuals onto an existing trajectory. Meaning, I do not want to change the trajectory, just where new...

mayanbriller