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Hi, I wanted to try the phyloligo method on my data but encountered the following error.
I installed it through conda.
I obtain the error when using `--large memmap`.
```
❯ phyloligo.py -i
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Hi @nextgenusfs,
I was running the funannotate predict and found my script cannot went through. So I tried `funannotate test -t busco` and `funannotate test -t predict`, and waited for one hour. (`ht…
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Thanks for scTE!
I got a strange output like this when running with self-made index, showing a series of numbers before correct gene/TE names.
![image](https://github.com/JiekaiLab/scTE/assets/967…
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Hello, thank you for developing the TE annotation software "EarlGrey." It makes annotating transposable elements very convenient. However, I have some questions. My species is a non-model plant, and c…
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**Are you using the latest release?**
If you are not using the latest release of funannotate, please upgrade, if bug persists then report here.
Using 1.8.7
**Describe the bug**
A clear and conci…
melop updated
2 years ago
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Hello, I'm trying to run the TE-analysis_Coverage.pl script to then use the suffling script in order to see if specific regions of my genome are TE enriched. I'm using data available for a published g…
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I feel like this type of method would work as a fantastic competitor to bacterial whole genome alignment software such as Mauv/progressiveMauve. Have you tried validating this software with bacterial …
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Hello,
I am trying to annotate a reptilian genome that has a fairly good scaffolded assembly (N50 = ~215MB; 1,966 scaffolds). Genome busco completeness is ~93%
I have RNA-seq data from a pooled se…
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**Describe the bug**
Dear my friend,
I have a genome running funannotate predict, but it tells me 0 gene models remaining, which seems impossible, and I have set the --repeat_filter parameter to non…
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Hi dear developers,
Thanks for your great scripts!
I made a fasta file containing 12 sequence from my repeat.lib generated by combining the ltr.lib, modeler.lib, and mite.lib and ran the DeepTE. Ho…