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HI,
Thanks for providing PHIAF.
However, It seems your tool cannot predict the hosts for new viruses? Maybe a more detailed guideline should be provided for the user who wants to use PHIAF?
…
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Hi,
I was able to train the joint model successfully. Then I wanted to train the cpg and dna model separately and the joint model on top. Training cpg and dna model worked fine, but I started havin…
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We require a sample dataset for this tutorial so that there is a standard set of images for users to process as they work through the different stages.
I realised whilst working on #11 that we prob…
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Hello!
I am working on training a RNA specific basecaller model. To that end, I have been attempting to use the RNA004 basecaller for training. However, this model does not seem to be outputting th…
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SVR has an option
```
kernel='precomputed'
```
If this is chosen, then the X array passed to the fit method is the Gram matrix of the training examples. This option should also be available f…
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Hello,
```
$ python prothint.py ../../NbLab330.genome.softmasked.fasta ../../NbenthamianaGenbankAA.fasta
warning on: /mnt/OneTB/annotation/NlabProt/ProtHint/dependencies/GeneMarkES/gmhmme3 -m…
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Hallo everybody,
As Windows 11 and Windows 10, version 21H2 support PyTorch using NVIDIA CUDA for GPU hardware acceleration inside WSL2 (https://docs.microsoft.com/de-de/windows/ai/directml/gpu-cud…
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Hello, I'm trying to train a basecaller using DNA that has been run through an RNA pore. When I run the following code:
`bonito basecaller dna_r10.4.1_e8.2_260bps_sup@v4.1.0 --min-accuracy-save-ct…
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Why is the result of DNA sequence and its complementary sequence of the model I trained inconsistent? For example, the Score 1 of a DNA sequence is larger than 0.5 but the score 1 of its complementar…
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Hi, I've characterized and later simulated 20000 reads from the E. Coli genome.
It seems that the simulated_aligned_reads.fastq file generated in the simulation phase isn't a valid fastq file, accord…