dashing2
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dnbaker
Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.
I am puzzled about the (for us) large _dashing1/dashing2_ differences for mash distances for some genome pairs. In the example below with _dashing1_ and _mash_ we get values around 0.25...
Neither the usage message nor the documentation in README.md explain what are the units of the `[size]` parameter for the `--countmin-size` option. Is it bytes?
The `-L` parameter for the `sketch` subcommand does not work as advertised. I get: ``` sketch: invalid option -- 'L' ``` Followed by usage message. If I replace `-L` with...
Hello Daniel, For nt Jaccard distance, estimated by either MinHash (e.g. probminhash) , we can follow the MASH paper to do a log function transformation (-1/k*(2log(J)/(log(J)+1))) to approximate ANI, what...
It would be great if there was a command that could print a cardinality estimate, perhaps from a single cached sketch (i.e. with `--cache` functionality). This was possible before with...
Hello Daniel, I compute sketches using dashing2 sketch and store sketch using - - outfile. There is a sketch and a sketch.name.txt. But I am not sure how to feed...
Hello Daniel, I saw some avx to neon support here: https://github.com/kunpengcompute/AvxToNeon https://github.com/DLTcollab/sse2neon I did not check the exact types used for dashing2 but it seems it has included major types....
Hello Danial, I am comparing 100 metagenomes, total size about 1 TB, I assigned 2Tb memory but I always have the follow error after a few hours: #Calling Dashing2 version...
Hell Dashing2 developer, Dashing can be use for genome derelication in nt format but I am wondering wither it is an option to have it also work for amino acid...
Dear Daniel, (first thank you very much for new binaries which emit distances with --set /--countdict, it works perfectly.) Could you please help me with another issue - the containment...
