sheikki

I ran into the same problem. Generating and sorting terabyte level files is far from optimal. Taking an advantage of the output being ordered by the 2nd column (the query...

For me the problem is that my input will depend on the output of the previous input. I've been trying to make this work by giving the `-l` option a...

I would also be interested in this feature. For example, imagine a situation where you sketch a large collection of genomes into `db.msh`. Now you want to do all-vs-all on...

"Argument list too long" is not a Mash issue, but related to your OS. List input is a text while with the format: ``` /path/to/where/is/genome1.fna /path/to/where/is/genome2.fna /path/to/where/is/genome3.fna .. ```

In my experience, k-mer size of 17 (-k 17) and sketch size of 50000 (-s 50000) is enough for differentiating Salmonella serovars. The default sketch size of just 1000 certainly...

Hi, Here are two more assemblies which fail similarly: ``` ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/017/826/655/GCA_017826655.1_PDT001000035.1_genomic.fna.gz ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/017/845/815/GCA_017845815.1_PDT001001406.1_genomic.fna.gz ```