cellrank
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theislab
CellRank: dynamics from multi-view single-cell data
## Description The _Terminal State Identification (TSI)_ score needs to be implemented through class method of GPCCA.
## Description There is no way to add a title to a heatmap at the moment.
According to the documentation of [BaseModel.prepare()](https://github.com/theislab/cellrank/blob/main/src/cellrank/models/_base_model.py#L298) if there's no Lineage specified, the weights will be set to 1. In such case [Line 366](https://github.com/theislab/cellrank/blob/cabbd348b97661251a7dfa37186b178ff489e746/src/cellrank/models/_base_model.py#L366) ```python probs = Lineage.from_adata(self.adata, backward=backward) ``` throws...
... Hi there, I am trying to compute the initial and terminal states of cells from time series experiments with the codes in the attached cellrank_check_script.txt. It worked when I...
Hi, Thanks for this amazing work! I have a questions about using the parameter `normalize_by_mean` set to `True`. When I focus the `early cells` terminal fate probabilities and try to...
I followed up the tutorial [here](https://cellrank.readthedocs.io/en/latest/notebooks/tutorials/kernels/200_rna_velocity.html) and with the pancreas exmaple dataset. Every time I went to the line `vk.compute_transition_matrix()`, python produced a segfault. Sometimes it just corrupted, other times...
Hi, thank you very much for Moscot and Cellrank resources! I was wondering if you could please advise the best way to get around the "XlaRuntimeError: RESOURCE_EXHAUSTED: Out of memory...
I normally run the differential kinetics analysis with the original cellrank. But when I tried cellrank2, adding the diff_kinetics=True argument did not make any difference. I have then checked, what...
When I attempt to run cellrank in a conda enviornment that also contains velocyto (so that I can generate my count matrices and then proceed) I am running into an...
Hello, I am wondering how it's possible to save the data (and the graphs) generated by scvelo and cellrank. More specifically, I am using both programs on a cluster, and...