Lukas W

can confirm, that version of the plugin brings back the button for the sidebar options on my setup :+1:

Hi @LiXingguangBrandonStark! Did you clone this repository? (`git clone https://github.com/W-L/ProblematicSites_SARS-CoV2.git`) You can then find the vcf for masking sites at `./ProblematicSites_SARS-CoV2/problematic_sites_sarsCov2.vcf` and the script to mask alignments in FASTA format...

The vcf has a column named `FILTER` with a recommendation for each site to either mask it before performing downstream analyses or to otherwise be cautious with interpreting results due...

Thanks for your message. We are currently investigating if there is a straight-forward way to add such flags to cross-reference problematic sites with amplicon primers in an automated and updateable...

Thanks for your message. We are currently investigating if there is a straight-forward way to add such flags to cross-reference problematic sites with amplicon primers in an automated and updateable...

Hi Alice, Thanks for your message. If the program starts as expected I don't think it would be an issue with the conda environment or other aspects of the setup....

Thanks! One thing you could try is to deactivate the detection of internally deleted TEs. That is, if you are not specifically interested in them. You can turn off this...

Hi! Thanks for reporting this. Looks like the code has some trouble writing the results to a file. My first guesses would be: - the actual string of [RAW DATA]...

Hi! Glad that your original issue was solved. deviaTE should probably check for such situations itself to be fair. I'll implement a fix for that. Concerning your second question: If...

I added a check to replace invalid characters in TE names, which should prevent the original error (https://github.com/W-L/deviaTE/commit/10d2b7063b2fef7fcaa24b0a45fa655a0c4d7565). I'm not going to make a new release of the package at...