Ryan C Shean

Hi Joan, Great to hear from you! I hope all is well with you! VAPiD performs really really poorly with all of the herpes viruses, this is partially because a...

Hi there! This looks like a problem with the installation at some point. Have you verified that running the example.fasta file works with the local blast database? You need to...

Hi Ana, I think I've seen this one before but it has been a while. If it's not too much trouble can you upload the sequence you are trying to...

Okay I took a look at your sequence on my computer. The command `python3 vapid3.py WUSTL_000226_A131.fasta example.sbt --r MW938189.1` Produces the error free and correctly annotated result I've attached. [WUSTL_000226_A131.gbf.txt](https://github.com/rcs333/VAPiD/files/7966307/WUSTL_000226_A131.gbf.txt)...

Hi Andrei, I'm in medical school so I don't check this repository very often. That being said this looks like an easy fix. Try using `python vapid3.py example.fasta example.sbt --metadata_loc...

Hi, VAPiD will only work if you have access to a good quality reference, this means that it only works well for well characterized viruses that have many genomes already...

Hey there, I originally built this only for human viruses so that is why AP010907 is not in the local database. I would try using the -f command to specify...

Shoot, well I haven't seen the error you pasted ever before. I haven't really tested VAPiD on non-human viruses so I'm not surprised weird stuff is happening. Yeah, adding your...

Good to hear from you Mike! I’ve never done hard testing like that so I don’t have exact numbers for you. The hard requirements are 1) the reference needs to...

Great! Yes, I agree completely. VAPiD is basically designed exactly for what you’re saying, when you’ve sequenced many samples of a well described virus this is a good tool to...