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I'm analyzing a dataset in which I expect one initial cell population to differentiate into several different cell populations. There's supposed to be only 1 partition. Here's the pseudotime plot:
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I want to have the matrix of cell by pseudo time from trajectory analysis for downstream analysis.
I was wondering is there any easy way to get this matrix?
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**Hello Tim and team,**
**As always thanks for your excellent work. I am in the process of using Signac to analyze some scATAC data and found the ClosestFeature function gave the following error:**
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Hi, Thank you for creating this great tool. I set the use_partition = FALSE to put all cells in the same pseudotime. Is went well in learn_graph step. But I found the cells in different partitions tur…
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Hi, thank you for this fantastic tool! It is proving useful in analysis of my motility videos on iPSC-derived myoblasts.
As I am not too familiar with the specifics on t-SNE, **I was wondering wha…
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Hi,
I used STREAM for scATAC-Seq analysis and the results are good for the individual datasets. I then tried to use map_new_data function but it produced the following error, while it works for the …
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Hello,
I am using tradeSeq downstream of calculating pseudotime with Monocle. The Monocle vignette ends with the construction of ```sce```
```
sce
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** If this is a question and not a bug report or enhancement request, please post to our google group at https://groups.google.com/forum/#!forum/monocle-3-users**
**Describe the bug**
I'm running …
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Hi,
I am testing your tradseq R package. However, I am getting an error I cant understand.
Here is my code:
`load("tradseSeq_example.RData")`
`lin
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Hi, we are doing pseudotime analysis on single-cell RNA-seq data. The ordering looks good based on known marker genes' expression, but the beginning and ending states are flipped. We tried to run the …