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Dear Changwei,
I was using autoMito to generate the 2 gfa files (raw and master) of the assembled Malus Domestica genome (as in Demo2) with the code as follows:
~/PMAT-1.5.3/bin/PMAT autoMito -i…
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Using `--fasta` and `--primer_bed` seems to not be working.
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Related to #473
here's a csv file `demo_fasta.csv`:
```
assembly,local_file
demo0,data/demo/demo0.fasta
demo1,data/demo/demo1.fasta
demo2,data/demo/demo2.fasta
demo3,data/demo/demo3.fasta
…
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What are we expecting to see in this data. eg Are there barcodes?
It appears to be a 1 GB fasta file (which is a bit odd as fasta does not have quality info) filename: `R2C2_Consensus.fasta`
seq…
sr320 updated
1 month ago
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![image](https://github.com/nerve-bio/NERVE/assets/143639717/6bee2a2e-760b-4586-a981-6aed93e8d273)
Please See the image and kindly instruct what to do in this kind problem. Why is the output file a…
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Hi,
I got a ModuleNotFoundError when testing the RiboCode installation with `RiboCode_onestep -V`
Can you help?
```
$ RiboCode_onestep -V
Traceback (most recent call last):
File "/nexus/posi…
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For tools such as `bambu` and `isoquant`, they produce an extended gtf including the novel isoforms which are not accompanied by a fasta file containing the sequence information. Is the fasta file req…
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Dear Developers,
I am encountering an issue with IQ-TREE 2 and would appreciate your assistance. When I run my analysis using the following command, it works perfectly:
`iqtree2.exe -s seq_outgroup_…
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I added two fasta files with contigs in my KBASE narrative and assigned them to FASTA assembly type, but GTDB does not recognize my input. Am I doing something wrong?
![Captura de tela 2024-01-12 160…
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In some FASTA files I get this index out of range error:
```
Exception in thread "main" java.lang.ArrayIndexOutOfBoundsException: Array index out of range: 655
at java.base/java.util.Vector…