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BaderLab / Tempora

Pathway-based trajectory inference method for time-series scRNAseq data
MIT License
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Error: object 'gams' not found in PlotVaryingPWs() #10

Closed kevincjnixon closed 4 years ago

kevincjnixon commented 4 years ago

Hello.

When running PlotVaryingPWs(), I was running into the error: object 'gams' not found. I went back through the code and found that the GAMs were calculated, but not stored in IdentifyVaryingPWs(). As a result, the GAMs were not provided for PlotVaryingPWs().

I came up with a quick fix around this by having IdentifyVaryingPWs() return a list with the Tempora object and the gams, and then inputting the gams into PlotVaryingPWs(), however it might be ideal to create a slot in the Tempora object for the gams which can be recalled in PlotVaryingPWs().

Thanks!

thinh-tran commented 4 years ago

Hi! Thanks for bringing this to my attention and apology for the oversight. I added a gams slot that can store the calculated GAMs, which can be accessed at object@gams. PlotVaryingPWs is now also points to this data.