CHEUI
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comprna
Concurrent identification of m6A and m5C modifications in individual molecules from nanopore sequencing
Hi team, I would like to have clarity on the column header position in the output file of site_level_prediction (CHEUI solo outputs). Does it indicate the position of modified base...
Hi team, I was trying to run the command: python3 ../scripts/CHEUI_predict_model2.py -i read_level_m6A_predictions_sorted.txt -m ../CHEUI_trained_models/CHEUI_m6A_model2.h5 -o site_level_m6A_predictions.txt The command got executed, and the site-level file was made, but it also...
I was trying to execute the following command for the prediction of m6A probability and stoichiometry at every A nucleotide site in the reference transcriptome y using following command, but...
Hi CHEUI team, I'm running the below cheui script for almost 24 hours with 28 CPU in HPC, however, it seems slow. Is there any way to specify CPU core...
Hello there, I came across an error message while running the final site-based prediction: '../scripts/CHEUI_predict_model2.py' "transpose expects a vector of size 3. But input(1) is a vector of size 4"...
Dear CHEUI, Any chance you have created a docker, or could create one? Thanks
How are you doing? I am interested in detecting m6A in viral RNA and I am testing with your program. However I am having problems with preprocessm6A. The input I...
Hi all, Not sure if this is a duplicate of #38. I've been trying to get CHEUI up and running but have been running into an issue with the preprocessing....
I am using the latest Dorado basecaller for basecalling, and I’ve noticed that the summary file it generates seems to differ from the one produced by Guppy. When I attempt...
Hello, I am trying to replicate your results using CHEUI, but I'm encountering issues with nanopolish during the preprocessing steps. When generating the index, I receive the following error (example...
