taxonkit

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[Question] Graphical representation of taxdumps

2

Is it possible to generate a graphical representation of a taxdump? Most taxdumps are huge and impractical to represent graphically but, sometimes when testing, users work with reduced taxdumps that...

fgvieira

[Feature] taxonkit list from taxon name

6

### Prerequisites - [x] make sure you're are using the latest version by `taxonkit version` - [x] read the [usage](http://bioinf.shenwei.me/taxonkit/usage/) ### Describe your issue `taxonkit` allows to list all children...

fgvieira

profile2cami not working as expected

6

When using a profile with multiple ranks as input, the output gives summed up ranks for the higher ranks, e.g.: ``` 2 1 1224 0.7 1236 0.3 ``` Leads to:...

paulzierep

Exclude nodes from the taxonomy

2

Is it possible to remove a node (or a list of nodes) and (optionally) all those downstream? I am trying to remove all branches of the taxonomy that are unclassified...

fgvieira

Feature request: viral realms

2

Hi, I work on viral omics and I'm using your tool to get complete lineages out. I really like the function where I can get formatted lineages out. ` cut...

mdhishamshaikh

Too fuzzy name searching with name2taxid

2

#88 ``` $ echo 'Pholoe glabra' | taxonkit name2taxid -f Pholoe glabra 2975041 ``` ``` $ echo 2975041 | taxonkit lineage 2975041 cellular organisms;Eukaryota;Viridiplantae;Streptophyta;Streptophytina;Embryophyta;Tracheophyta;Euphyllophyta;Spermatophyta;Magnoliopsida;Mesangiospermae;Liliopsida;Petrosaviidae;Asparagales;Asphodelaceae;Asphodeloideae;Gasteria;Gasteria carinata;Gasteria carinata var. glabra (Salm-Dyck) ```...

tao-bioinfo

Reformat discards intermediate noranks

5

### Prerequisites - [x] make sure you're are using the latest version by `taxonkit version` - [x] read the [usage](http://bioinf.shenwei.me/taxonkit/usage/) ### Describe your issue * [x] describe the problem *...

fgvieira