README.md

Onekp Utility

Filtering and Fetching Onekp data from Gigadb

Show Metadata

Show Liverworts and Mosses metadata

onekp metadata --filter-key clade --filter-values Liverworts,Mosses

WOGB    Mosses  Andreaeales     Andreaeaceae    Andreaea rupestris      gametophyte, tip of shoots, possibly some developi
ORKS    Mosses  Bartramiales    Bartramiaceae   Philonotis fontana      gametophyte
...
HERT    Liverworts      Sphaerocarpales Sphaerocarpaceae        Sphaerocarpos texanus   gametophyte, possibly some sporophytic tissue
FITN    Liverworts      Treubiales      Treubiaceae     Treubia lacunosa        whole plant

Fetch fasta files

Retrive by IDs

onekp fetch --filter-key id --filter-values URDJ,WTKZ -s both -r .

Batch download

Download protein and cds sequences of Liverworts and Mosses

onekp fetch --filter-key clade --filter-values Liverworts,Mosses --sequence-type both --root-dir .

Show Key data

onekp show -k clade

Basal Eudicots
Basalmost angiosperms
Chloranthales
Chromista (Algae)
Conifers
Core Eudicots
Core Eudicots/Asterids
Core Eudicots/Rosids
Cycadales
Dinophyceae
Euglenozoa
Eusporangiate Monilophytes
Ginkgoales
Glaucophyta (Algae)
Gnetales
Green Algae
Hornworts
Leptosporangiate Monilophytes
Liverworts
Lycophytes
Magnoliids
Monocots
Monocots/Commelinids
Mosses
Red Algae