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Hi
I am using fastANI to analyze the average identity between chromosomes of two closely related species with conserved chromosomal macrocolinearity. Only one chromosome was used for each analysis. …
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Hi,
When I try to run quickmerge using assembly A as reference (Illumina assembly ~746MB) and assembly B (nanopore assembly ~846MB) as query, it works fine.
However, when I switch assembly A as…
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I use nucmer to compare the genomes of two corns, but no matter how much I set “-t”， it can only call ten threads.
Below is my code, I tried both，
`nucmer --maxmatch -c 500 -b 500 -l 200 -g 1000 A.f…
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Is it somehow possible to split my very large nucmer.delta data into chunks to filter them separately and merge the results back?
I compared two assemblies of 700Mb and the .delta is 39GB
Now runnin…
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It seems that changing the `--threads` parameter doesn't cause `nucmer` to use any less CPU. `nucmer` always uses ~600% CPU on our 80-core server.
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**Describe the bug**
Used another Pathogen for testing. The next flow run stops at the masking step. Gets an error:
-[CDCgov/mycosnp-nf] Pipeline completed with errors-
Error executing process > …
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Hi @aganezov,
I'm trying to merge two assemblies resulted from different settings with Supernova. Since I have fasta file I think I have to convert them in point formatted file by running `fasta2ca…
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Hi,
on MacOS, nucmer seems to generate delta files that cannot be parsed by show-coords. An example file is attached: [out.delta.txt](https://github.com/mummer4/mummer/files/6310181/out.delta.txt).…
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#### Summary:
Make `--noextend` the default NUCmer behaviour for v0.3, and implement an `--extend` option for `pyani anim` that allows us to use `pyani` compare to see what the damage is likely to ha…
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Hello,
I see I can chose to use nucmer instead of blat with the --fastMap option but I can't find anywhere in the files or manual how to chose pblat over blat. I would like to use pblat both because …