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ZiyueYang01 / VirID

VirID: An integrated platform for the discovery and characterization of RNA Viruses
MIT License
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The positive viral sequence was filtered out during the construction of tree #11

Closed franco-ye closed 1 month ago

franco-ye commented 1 month ago

Hello Developer: Thanks to the development of the all-in-one tool for detecting RNA viruses, I encountered errors while running the code.

  1. [WARNING: Picorna-Calici:1 records contigs that do not reach the threshold]

  2. [ERROR: An error was encountered while running mafft in result/phylogenetic_analysis/Picorna-Calici/Picorna-Cali]

    The program is functioning well. I am wondering why a known RNA sequence is excluded when building an evolutionary tree.

ZiyueYang01 commented 1 month ago
  1. To accelerate the analysis of the Picorna-Calici superclade, we excluded contigs encoding proteins with fewer than 400 amino acids before alignment, as detailed in VirID/config/config.py.
  2. This error may be due to mafft didn't run successfully, you can email me the sequence yangzy58@mail2.sysu.edu.cn and I'll test.
franco-ye commented 1 month ago

Thank you for your reply. The data I tested is a known virus sequence. I will email it to you. Thank you for your assistance!