Mash
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marbl
Fast genome and metagenome distance estimation using MinHash
Hello! In the manuscript you use the dist results to create a neighbor-joining tree. Is there a workflow for that are a tutorial? Thanks in advance!
Hi, when building mash 2.3 with gcc-11 to upload a new Debian package version the build stumbled upon: error: ‘numeric_limits’ is not a member of ‘std’ This simple [patch](https://salsa.debian.org/med-team/mash/-/blob/master/debian/patches/gcc-11.patch) fixes...
Hi, Are Mash distances and number of common kmers always symmetric? That is, genome 1 vs genome 2 gives the same results as genome 2 vs genome 1. I believe...
I wanted to try calculating mash distances using my own code. I exported the hashes as integers for two `.msh` files using the `mash info -d` command. When I run...
Hello, I have a question about how to process a sample if it has paired- but also single-end reads: my samples have FASTQ files with paired reads (`R1` and `R2`)...
Hi mash screen is very friendly and quick. I use it to test if my assembly is containment with bacterium. Can it output which contig is containmented? I want to...
i want to use the mash sketch, how many genomes can the mash deal with once?
Hello, I have noticed that a discrepancy between the results of using mash screen with and without the winner-take-all (wta) option. For context I am screening a number of genomes...
Hello I was using mash before with a set of paired end reads, the issue is that now I'm using the `-r` flag as recommended when sketching reads (metagenomic reads),...
Would it be easy to add a flag to report only the top n hits per query sequence? This would enable users to get the most similar genome in their...
