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I'm working on scaffolding a HiCanu assembly for a shark species that has had duplicates purged. It was assembled with ~45x PacBio Hifi (Median length: 13,710 bp; Mean length: 13,590 bp; Max. length: …
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Hi everyone,
is it possible to specify multiple contigs like: **'contigmap.contigs=[12-20/B14-16/1-5/B18-20/1-5]'** when scaffolding a motif?
I have an active site which is made by non continous …
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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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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…
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Hi,
Thanks for contributing to this fascinating tool.
According to your example, only one Fasta file was given as input. How can I provide multiple Fasta files for FMAlign2?
Please note that all …
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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…
ghost updated
2 months ago
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Hi, I am using the latest version 0.13, and when mapping reads against co-assembled contigs, no sam file is created. This message appears in the log file:
This is strobealign 0.13.0
Estimated rea…
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Thanks for creating such a nice assembler.
In the research we're doing, we're looking to exploit the relationship between contigs in the assembly graph. Several other tools, such as `Recycler`, `Gr…
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Hi,
I followed the instructions for running this pipeline with the docker container and the dataset that comes with the github repo. The pipeline stopped at the assembly step. I believe it may be…
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Thanks for providing these mappings, @aculm.
`GENEPIO` and `OMIT` aren't defined as prefixes yet. That's an error condition but it isn't super visible in the standard build process. We haven't us…