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Hi, I have a question about the mikado pick algorithm.
When I run transdecoder on mikado_prepared.fasta, I noticed that transdecoder will keep the longest CDS and delete the short one within long CDS…
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@kubu4 can you please re-run the primer design pipeline (this time including EMBOSS) so that we have reproducible documentation of the software and settings used, and so we can check the specificity o…
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Hi I'm running mikado version 2 (branch 270).
I find a problem of my output.
Since I got many (about 30%) incomplete CDS from mikado, I checked transdecoder output and only keep transcripts with com…
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Hi,
In Jbrowse/Apollo when I select my first chromosome all my genes are connected by 1 line as shown below:
![image](https://user-images.githubusercontent.com/588297/77009806-49b74a00-69b4-11ea-8…
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Hi,
I used `agat_sp_complement_annotations.pl` and got the for example this gene:
```
NbV1Ch03 transdecoder gene 7020898 7094668 . - . ID=NBlab03G03860
NbV1Ch03 …
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Hi,
How is it possible to create `og.csv`?
Thank you in advance,
Michal
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In the [tutorial documentation](https://funannotate.readthedocs.io/en/latest/tutorials.html#non-fungal-genomes-higher-eukaryotes) for higher eukaryotes there are a few suggestions about additional par…
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Hi,
I used `agat_sp_complement_annotations.pl` and it created the following GFF3 file:
```
##gff-version 3
##sequence-region NbV1Ch01 1 187295484
NbV1Ch01 annotation remark 1 …
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Hi,
I used the latest code and got `UnboundLocalError: local variable 'geneid' referenced before assignment`. The following parameters were used:
```
python /apps/genomeGTFtools/blast2genomegff.p…
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Hi ,brian
After trinity assembly from 21 samples, i got a trinity.fasta. And i try to remove the redundance using cd-hit-est with command "cd-hit-est -i Trinity.fasta -o Trinity_cd_hit.fasta -M 20…