Daniel Dimitrov comments

Results 206 comments of


                                            Daniel Dimitrov

Additional metadata in results dataframe

Thresholding is already done implicitly via `expr_prop` but I agree having the option to include these columns would make it more interpretable 🙂

Add aggregate function for MISTy models (extend plots)

@PauBadiaM can you elaborate man? I don't remember what you meant by this.

Add aggregate function for MISTy models (extend plots)

@PauBadiaM ahh okay

Help understanding causal network output

Hi @ebasto, These ("_s","_t","_meas_c0","") are just dummy variables used when setting the ILP problem to be solved. `source_weight` and `target_weight` are the inputs provided to the causal net method (the...

create metalinks estimation function

Added in v1.3.0

Querying Pypath & BioCypher knowledge graph

This relates to an ongoing effort here: https://github.com/biocypher/liana

How to customise the X-axis order in heat_freq and color in chord_freq

Hi @mainharryHR, Thanks for using it :) Not 100% sure what your data looks like - is it a filtered dataframe to only one cell type? I assume there might...

How to customise the X-axis order in heat_freq and color in chord_freq

Ahhh, I see. I believe ComplexHeatmap (what I use in the background) shoud allow you to order according to the categories (levels) of your cell types. This might require that...

Database form clarification

Hi @Tianyi409, > I recommend that you clarify this fact in the tutorial. Thanks, this is good feedback. I have also noticed that this is a common mistake, I will...

Database form clarification

aggregate_rank would be a probability distribution calculated with the RobustRankAggregate method of the ranks across different ligand-receptor methods. Mean rank is just the mean rank across different ligand-receptor methods, while...