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kunwang34 / PhyloVelo

PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
https://phylovelo.readthedocs.io/en/latest
BSD 3-Clause "New" or "Revised" License
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Whether this tool can be used for one sample TCR data? #9

Closed MugenQin closed 1 year ago

MugenQin commented 1 year ago

Thanks for this good tool! I wanna analyse my data for one sample, but while I run dyn.pd.state_graph, I got this error: ValueError: need at least one array to concatenate Could you give me some ideas for this error?

kunwang34 commented 1 year ago

Hi Mugen,

To help me diagnose the problem, could you please share your code and the full error output you got when you ran dyn.pd.state_graph? You can paste it in a code block.

I will try to figure out what’s wrong and get back to you as soon as possible.

MugenQin commented 1 year ago

Hi Mugen,

To help me diagnose the problem, could you please share your code and the full error output you got when you ran dyn.pd.state_graph? You can paste it in a code block.

I will try to figure out what’s wrong and get back to you as soon as possible.

Hi kun,

I fellow the tutorial on the "Apply PhyloVelo to clonal lineage tracing data - TCR" page, I run successfully while I had more than one sample to run. But I got this error while I just run one sample. I made it as reference and then run the pipeline like I have more than one sample.

kunwang34 commented 1 year ago

One sample data is suitable for PhyloVelo analysis, but the error you reported is related to the dynamo tool. To diagnose the problem, I need the full error output that you got when you ran the tool. Please copy and paste the error message here, or attach a screenshot of it. This will help me to find the source of the issue and provide a solution.

MugenQin commented 1 year ago

One sample data is suitable for PhyloVelo analysis, but the error you reported is related to the dynamo tool. To diagnose the problem, I need the full error output that you got when you ran the tool. Please copy and paste the error message here, or attach a screenshot of it. This will help me to find the source of the issue and provide a solution.

Sorry for the delayed reply, I had solved that problem.