Doubts when using mash on multiple assemblies

[alanxelena]

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 mash sketch. I don't know if I am using mash sketch correctly but I get a single sketch file for each assembly. Is there a way to merge every sketch into a single file? or why am I getting a single mash file from the tutorial? I am not able to read the .msh contents so I am not sure what is inside this pre computed file.

Any help would be really appreciated!

[kalebabram]

If you use mash paste you can provide a text file with the file path of each individual sketch on a separate line.

For example you could run: mash paste my_concat_sketch -l /fp/to/list/of/sketch/fps

As to the "not able to read the .msh contents" use mash info my_sketch.msh to get a summary of what is contained in the sketch.