Closed TimothyStiles closed 10 months ago
adding the help wanted tag because @Koeng101 wants this merged but the following still needs to be done and I won't be able to get around to it for at least a week.
seqhash
or maybe a new search
package?Linking this to #356
I really like @soypat changes in this case. They make a lot of sense to me
This package is meant to help create "sketches" via the mash sketching algorithm. There's plenty of room for optimization here but I've implemented the core idea.
Mash: fast genome and metagenome distance estimation using MinHash.
Ondov, B.D., Treangen, T.J., Melsted, P. et al. Genome Biol 17, 132 (2016). https://doi.org/10.1186/s13059-016-0997-x
Mash Screen: high-throughput sequence containment estimation for genome discovery.
Ondov, B., Starrett, G., Sappington, A. et al. Genome Biol 20, 232 (2019). https://doi.org/10.1186/s13059-019-1841-x