liana-py

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Cellphone DB (and other database versions)

2

Hi, Sorry if this information is available somewhere but I cannot find it. I would like to know what version of cellphoneDB (and other databsases) you have inside the liana-py...

SimonDMurray

Additional metadata in results dataframe

2

Hi, I would really like a way to print the percent expression and CPM values for the (minimally expressed) ligand and receptor in the results dataframe for li.mt.rank_aggregate() or any...

dnjst

Help understanding causal network output

1

Hello, I wanted to ask for clarification regarding the output of the causal network vignette "Hypothesis-testing for CCC & Downstream Signalling Networks". Here is my current understanding: _**column name** (observed...

ebasto

Add aggregate function for MISTy models (extend plots)

3

When running multiple misty models across slides it would be good to have a function to aggregate them.

PauBadiaM

create metalinks estimation function

1

EliasFarr

Currently scanpy is being used as a core dependency of LIANA. However, in reality it's used only in a couple of places, the most problematic being the calculation of DEGs...

dbdimitrov

Querying Pypath & BioCypher knowledge graph

1

LIANA's resources should be directly accessed via Pypath. Extensive PK graphs with BioCypher would also allow further refining of results and inference. This is to be added in future updates.

dbdimitrov