Mash
Mash copied to clipboard
marbl
Fast genome and metagenome distance estimation using MinHash
Hello! I was wondering if there is any documentation about the file format of the .msh files? I have looked most places, and I have not managed to find any...
Hello Team, How can I transform amino acid Jaccard distance to an amino acid MASH distance? Should be different from that of nt genomes right because alphabet is not the...
Hi! I am trying a GWAS tutorial (https://pyseer.readthedocs.io/en/master/tutorial.html) which starts by using mash on multiple fasta files which correspond to assemblies. This tutorial has downloadable content which contains a single...
Hello, I'm currently working on Mycobacterium caprae and Mycobacterium bovis. These subspecies of the M. tuberculosis complex are phylogenetically very similar, so the task of identifying them is not always...
Dear mash team, I noticed that the newest commit with the -M option, where kmer multiplicity will be stored in the sketch. My question is will they be used to...
Hi, I'm using Mash to detect contamination in de-novo genome assemblies, together with other tools that work on the latest release of the RefSeq database. Is it possible to build...
I originally installed mash through [mashtree's Conda command](https://anaconda.org/bioconda/mashtree) and got an error saying I needed mash version > 2. I have tried the following commands, unsuccessfully, to update mash to...
I am using Mash with good results, but in about 1/10 times, I get the following error when sketching: `ERROR: Did not find fasta records in "1234.fna". ` If I...
Dear mash developers, Any possibility to also support M1 ARM cpu structure? Or a binary for that. Many thanks, Jianshu
Hi developers, thanks for this tool. I've installed version 2.3 and noticed that `mash dist -p 1` actually spawns about 8 threads instead of 1. I've checked the `-p` parameter...
