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Long term, it would be better to compute the schur decomposition _before_ running GPCCA, i.e. having a `self.decompose(mode: str = 'schur/eigen', method: str = 'krylov/brandts/scipy')` method that one…
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- [x] Additional function parameters, change functionality or change defaults?
- [ ] New estimator in `cr.tl.estimators`?
- [ ] New kernel in `cr.tl.kernels`?
- [ ] New gene trend model in `cr.ul…
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Upon running
```
from cellrank.tools.kernels import PalantirKernel
pk = PalantirKernel(adata, time_key='dpt_pseudotime').compute_transition_matrix()
print(pk)
from cellrank.tools import GPCCA
g …
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Thanks for this really nice addition to the Scanpy ecosystem!
I was following the basic tutorial with my own data and came about a small bug in the `cr.tl.final_states()` function, which seems to e…
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Say I compute my schur decomposition using `self.comptue_schur()`, which by default gives me a decomposition of size `10`. If I now compute metastable states using `self.comptute_metastable_states(n_s…
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**Reported by Clancy Rowley on 2014-07-26**
I'm considering rewriting some of the routines in python-control so that it will no longer depend on SLICOT. The main reasons for this are that 1) because S…
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GDPT works with the schur decomposition, which is not available in CFLARE. Therefore, the method should be moved. Also, as soon as we have the schur decomposition available, it should use it, rather t…
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Encourage this error when running [Leveraging Qiskit Runtime tutorial](https://qiskit.org/documentation/nature/tutorials/07_leveraging_qiskit_runtime.html) locally. The notebook itself has some bugs b…
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I call `g_fwd.compute_metastable_states(cluster_key='clusters', n_states=11)`, which prints out:
```
Computing metastable states
INFO: Using pre-computed schur decomposition
WARNING: The followi…
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I compute metastable states as `g_fwd.compute_metastable_states(cluster_key='clusters', n_states=2)`, which gives the following output:
```
Computing metastable states
INFO: Using pre-computed schu…