table of contents
other versions
- stretch 1.1.2-3
- testing 1.1.4-2+b2
- stretch-backports 1.1.4-2~bpo9+1
- unstable 1.1.4-2+b2
MASH2MATRIX(1) | User Commands | MASH2MATRIX(1) |
NAME¶
mash2matrix - create all pairwise distances between samplesSYNOPSIS¶
mash2matrix <matrix_in> > all_distances.csvDESCRIPTION¶
Uses mash (http://mash.readthedocs.io/) to create all pairwise distances between samples.NB: the input to mash should be the same order as the .pheno file generate <assemblies.fa> with:
- cut -f 1 metadata.pheno | tr '
' ' '
Then run
- mash sketch -o reference <assemblies.fa>
- mash dist reference.msh reference.msh > mash_distances.txt
- mash2matrix mash_distances.txt > all_distances.csv
AUTHOR¶
This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.March 2017 | mash2matrix 1.1.2 |