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We wanted to find out if SO is the place for a “genetic variation type” term or should it go in EDAM (under “genetic variation”) . There can be many “types” of genetic variations e.g. whole gene intr…
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After a fresh run of prepare_databases with no errors, when I have DRAM print settings, I get the following:
```
VOG annotations:
Description_Db_Updated: Unknown, or Never
Citation: J. T…
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In a comparison of metagenomic assemblies made only from illumina short-read data (metaSPADES) to hifiasm-meta assemblies (the primary contig file, .p_ctg.gfa), we found an ARG assembled in a metaSPAD…
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I want to know which version of sarg database
https://github.com/xinehc/args_oap/tree/main/src/args_oap/db. Thank you very much!
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- [ ] various formats (genbank, embl, etc)
- [ ] subsets of the data by record type
Doing the conversion client side would be a good option. There are javascript projects for parsing the differen…
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the low complexity filter has a fixed default 30%
that is priobably ok for genomes with 50% GC
but if my bacterial genome say has 78% GC, then statistically 30% might throw away too much
might be c…
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# Background
- MELT helps us find these: https://en.wikipedia.org/wiki/Mobile_genetic_elements
- People are usually interested in these ones in particular: https://en.wikipedia.org/wiki/Alu_element
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Hi Hyungro
I ran MGEScan nonLTR locally not within galaxy. My nonLTR nonltr.gff3 output has a few features whose end coordinate is beyond the end of the sequence it is on. Any idea why this might b…
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Hi developer, I met a lot of warmings when running dramv-annotate: it looks like:
```
2024-03-07 09:45:29,681 - 1 fastas found
2024-03-07 09:45:29,681 - Checking for duplicate names
2024-03-07 09:…
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Hi @guipenedo , I used your substring dedup script to perform deduplication on a dump of cc and did some manual inspection. I find that some resulting duplicates a bit strange.
For example,
```
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