Ploy N. Pratanwanich

I use `gene_id` instead of `chr` and `gene_name` because I want to keep the format of data.json to be consistent with when `transcript_id` is used.

However, `chr` and `gene_name` may be included in the final result table?

Hi @mmiladi, Sorry for the delayed response. In theory, it shouldn't make much different. In the paper, different Guppy versions were used. However, I recommend to use the same Guppy...

Hi @q1134269149, Sorry for your inconvenience. We plan to handle these errors in the later release as soon as possible. For the error, could you please check if you use...

Hi @q1134269149, We are testing a new feature that can accept a gtf file from users. So, you can use any version of alignment. But this feature will come in...

We are fixing these data links. Now, you can download the preprocess data files ,which are much smaller, via https://doi.org/10.5281/zenodo.4604945 and https://doi.org/10.5281/zenodo.4587661.

Hi @pa6774ac-s, You're welcome! The 'model_kmer.csv' file was obtained from Nanopolish output. It contains model_mean and model_std of all 1024 kmers from the Nanopolish model. So, we use them as...

Hi @pabloacera, That's good to hear :) Yes, you can get the read-level information by using the --save_models option when you run xpore-diffmod. You will get all the learned parameters...

Hi @cathoderaymission, Yes, those Kmers containing 'N' are discarded. Oh, you are right. There is no check for the "NNNNN" Kmers in the transcriptome mode. We will add the 'N'...

- The data input are saved.