TaxonKit v0.7.0

Changes

• TaxonKit v0.7.0
  • taxonkit: 2-3X faster taxonomy data loading.
  • new command taxonkit filter: filtering taxIDs by taxonomic rank range. #32
  • new command taxonkit lca: Computing lowest common ancestor (LCA) for taxIDs.
  • taxonkit reformat:
    • new flag -P/--add-prefix: add prefixes for all ranks, single prefix for a rank is defined by flag --prefix-X, where X may be k, p, c, o, f, s, S.
    • new flag -T/--trim: do not fill missing rank lower than current rank.
  • taxonkit list: do not duplicate root node.

TaxonKit v0.6.2

• TaxonKit v0.6.2
  • taxonkit reformat -F: fix taxids of abbreviated lineage containing names shared by different taxids. #35

TaxonKit v0.6.1

• TaxonKit v0.6.1
  • taxonkit lineage:
    • new flag -n/--show-name for appending scientific name.
    • new flag -L/--no-lineage for hide lineage, this is for fast retrieving names or/and ranks.
  • taxonkit reformat:
    • fix flag -F/--fill-miss-rank.
    • discard order restriction of rank symbols.

TaxonKit v0.6.0

Changes

• TaxonKit v0.6.0
  • taxonkit list:
    • check merged and deleted taxids.
    • fix bug of json output. #30
  • taxonkit name2taxid: new flag -s/--sci-name for limiting to searching scientific names. #29
  • taxonkit version: make checking update optional

TaxonKit v0.5.0

• TaxonKit v0.5.0
  • taxonkit: requiring delnodes.dmp and merged.dmp.
  • taxonkit lineage: detect deleted and merged taxids now. #19
  • taxonkit list/name2taxid: add short flag -r for --show-rank, -n for --show-name.

TaxonKit v0.4.3

Changelog

• TaxonKit v0.4.3
  • taxonkit taxid-changelog: rewrite logic, fix bug and add more change types

TaxonKit v0.4.2

Changelog

• TaxonKit v0.4.2
  • taxonkit taxid-changelog: change output of ABSORB, do not merged into one record for changes in different versions.

v0.4.1

• TaxonKit v0.4.1
  • taxonkit taxid-changelog:
    • add fields: name and rank.
    • and fix sorting bug.
    • detailed lineage change status.

TaxonKit v0.4.0

Changelog

• TaxonKit v0.4.0
  • new command: taxonkit taxid-changelog: for creating taxid changelog from dump archive

TaxonKit v0.3.0

Changelog

• TaxonKit v0.3.0
  
  • this version is almost the same as v0.2.5