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LabTranslationalArchitectomics / riboWaltz

optimization of ribosome P-site positioning in ribosome profiling data
MIT License
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Q: Get the Codon Usage Index Table #80

Closed chenghongdeng closed 7 months ago

chenghongdeng commented 7 months ago

Hi Fabio,

Firstly, I would say I have RiboWaltz, it is very useful for my research.

I am able to get command working. Right now I have the figure for codon usage. However, my question is: If is possible for me to get the actually table which contain the codon usage index for each individual codon.

Thank you Chenghong

fabiolauria commented 7 months ago

Hi Chenghong, thank you for using riboWaltz.

Theoretically, the _codon_usagepsite fuction, as all the others from the tools, return as output a list. In this list, you can find the plot, the data to manually build the plot with personalized scales and options and the data - raw or normalized - the plot is based on. You can find here more details about the canonical output of every function.

If the data you are looking for are not in these tables, just let me know.

Best Fabio

chenghongdeng commented 7 months ago

Hi Fabio,

Thanks for your responses. I will look into that.

fabiolauria commented 7 months ago

Good! I'll close this issue then. Feel free to reopen it if needed.

Best Fabio