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Hello, for some samples, when assembling the chloroplast genome, the two contigs do not merge into a circular contig. I'm trying to find a solution, as well as to assemble them manually if possible, i…
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### Description of feature
Would it be possible to add contig inclusion/exlcusion based on config cfr Mosdepth module?
```
include_contigs:
- "chr*"
exclude_contigs:
- "*_alt"
…
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Hello
Firstly thanks for making this great tool.
I have used`Flye 2.9.3-b1797` to assemble ONT reads for a plant genome (assembly size 830 Mb). I installed Flye using bioconda. Before running F…
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Add tests for [MetaCoAG](https://github.com/metagentools/MetaCoAG) in `gbintk`.
- [ ] test spades input
- [ ] test megahit input
- [ ] test flye input
- [ ] test that the [bins have the correct …
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Hi,
I had ~37.8 million Illumina paired end sequencing reads (Plant whole genome with chloroplast and mito genome included). I tried assembling the Chloroplast genome where around 4.39 million read…
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Hi
I did an assembly with megahit and so got a fasta file with names such as `>k141_689269 flag=1 multi=3.0000 len=1348`
Running the `fairy coverage` command gave me table as such
```
contigNa…
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Hello!
Thank you for developing genomad!
Following on from this #62 ...
I'm trying to understand how the number of contigs binned to each MAG affects the number of plasmid and virus classif…
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Hello,
Thank you for your software! After running MitoHifI I am receiving an error that suggests that there are two entries in the all_potential_contigs.fa file. I looked at them using `grep` and t…
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Hello --
Thank you so much for making an accessible genome finishing tool. I've greatly enjoyed running the pipeline, and it was wonderfully easy to install and run. I did want to ask about one iss…
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```
Then, the circular contigs were left alone, and each tangled “circle” was re-assembled by Hifiasm-meta with default parameters, using the fragmental contigs that constructed the “circle” as input…