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Young edited this page Feb 23, 2024 · 3 revisions

mashtree

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Create a tree using Mash distances.

Documentation : https://github.com/lskatz/mashtree

Citation : https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9380445/

Directory tree:

mashtree/
├── mashtree.nwk
└── mashtree.txt

Example files:

mashtree.nwk

(GCF_000758465.1_ASM75846v1_genomic:0.02719,GCF_000788095.1_ASM78809v1_genomic:0.02757,((Stenotrophomonas_maltophilia_GCF_900475405.1:0.00748,GCF_000742995.1_ASM74299v1_genomic:0.00935):0.02154,(GCF_000978875.1_ASM97887v1_genomic:0.03294,(GCF_000972335.1_ASM97233v1_genomic:0.07291,GCF_000834105.1_ASM83410v1_genomic:0.07624):0.03075):0.00454):0.00443);

mashtree.txt

.	GCF_000788095.1_ASM78809v1_genomic	GCF_000742995.1_ASM74299v1_genomic	GCF_000978875.1_ASM97887v1_genomic	GCF_000972335.1_ASM97233v1_genomic	GCF_000758465.1_ASM75846v1_genomic	GCF_000834105.1_ASM83410v1_genomic	Stenotrophomonas_maltophilia_GCF_900475405.1
GCF_000788095.1_ASM78809v1_genomic	0	0.0627925	0.0705214	0.140086	0.0547614	0.143644	0.0600907
GCF_000742995.1_ASM74299v1_genomic	0.0627925	0	0.0675191	0.13759	0.0632225	0.144391	0.0168334
GCF_000978875.1_ASM97887v1_genomic	0.0705214	0.0675191	0	0.134163	0.0688799	0.142367	0.06574
GCF_000972335.1_ASM97233v1_genomic	0.140086	0.13759	0.134163	0	0.14095	0.149146	0.14095
GCF_000758465.1_ASM75846v1_genomic	0.0547614	0.0632225	0.0688799	0.14095	0	0.14043	0.060969
GCF_000834105.1_ASM83410v1_genomic	0.143644	0.144391	0.142367	0.149146	0.14043	0	0.139576
Stenotrophomonas_maltophilia_GCF_900475405.1	0.0600907	0.0168334	0.06574	0.14095	0.060969	0.139576	0
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