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Hello,
Trying to understand the output of KmerGO. What's the distinction between kmer vs contig? Are contigs just any sequence found that was greater than the threshold set for kmer?
For example…
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It seems like only certain SPAdes options can be passed on to SPAdes via Unicycler 0.5 using the **--spades_options** flag. Is there a list of these valid options?
are **-m and --phred-offset** th…
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Hi,
We have run annotate_hits_pyseer to annotate k-mers.,but we are not sure if it has mapping quality when annotating k-mers? Do you have any suggestions?
Thank you in advance!
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Hey @barche
I have a class wrapped:
```c++
mod.add_type("SequenceGraph")
.constructor()
.method("load_from_gfa", &SequenceGraph::load_from_gfa)
```
The class has …
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e.g. if a chromosome from a genome sequence has a single non-ACGTN in it, the entire sequence will be ignored. This is unexpected.
This should probably be changed so that such k-mers can be skipped…
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# Autometa Methods Documentation Video Series
This is a series of videos with voiceovers visualizing describing Autometa methods with visual aides generated by [manim](https://www.manim.community/)…
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Hi,
I'm using wtdbg2 v2.5 on a 3G genome with about 60x PacBio Sequel CLR data and chose `-x preset3` for large genomes. Kmer counting was done in 90 minutes with 60 threads. The overlap stage is r…
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Currently, a kmer that occurs twice in the same read gets a count of 2, same as a kmer that occurs once in two different reads. But the latter kmer is more trustworthy, since it was observed in two …
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Hi,
Due to the nature of our system we are unable to acquire the parents of our sequenced individual, we sequencing a lot of children data.
What should I do to build hap-kmer using these children…
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Hi,
I am not able to run Plasmid Profiler past the KAT step. Could you please help troubleshoot this error?
Fatal error: Exit code 137 ()
/export/galaxy-central/database/job_working_directory…