Package: vegtable 0.1.9
vegtable: Handling Vegetation Data Sets
Import and handling data from vegetation-plot databases, especially data stored in 'Turboveg 2' (<https://www.synbiosys.alterra.nl/turboveg/>). Also import/export routines for exchange of data with 'Juice' (<https://www.sci.muni.cz/botany/juice/>) are implemented.
Authors:
vegtable_0.1.9.tar.gz
vegtable_0.1.9.zip(r-4.5)vegtable_0.1.9.zip(r-4.4)vegtable_0.1.9.zip(r-4.3)
vegtable_0.1.9.tgz(r-4.4-any)vegtable_0.1.9.tgz(r-4.3-any)
vegtable_0.1.9.tar.gz(r-4.5-noble)vegtable_0.1.9.tar.gz(r-4.4-noble)
vegtable_0.1.9.tgz(r-4.4-emscripten)vegtable_0.1.9.tgz(r-4.3-emscripten)
vegtable.pdf |vegtable.html✨
vegtable/json (API)
NEWS
| # Install 'vegtable' in R: |
| install.packages('vegtable', repos = c('https://kamapu.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/kamapu/vegtable/issues
- Kenya_veg - Vegetation-plots from Kenya
- Wetlands - Vegetation-plots from Tanzania
- Wetlands_veg - Vegetation-plots from Tanzania
- aspect_conv - Conversion of aspect classes to azimuth
- braun_blanquet - Conversion of Braun-Blanquet codes to cover percentage
- dune_veg - Dutch dune meadows as vegtable
- veg_layers - Information on vegetation layers
Last updated 4 months agofrom:9a97a87940. Checks:OK: 1 WARNING: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 07 2024 |
| R-4.5-win | WARNING | Nov 07 2024 |
| R-4.5-linux | WARNING | Nov 07 2024 |
| R-4.4-win | WARNING | Nov 07 2024 |
| R-4.4-mac | WARNING | Nov 07 2024 |
| R-4.3-win | WARNING | Nov 07 2024 |
| R-4.3-mac | WARNING | Nov 07 2024 |
Exports:add_relevesadd_releves<-as.listcleancount_taxacount_taxa<-cover_transcross2dbcrosstabledf2coverconvertdf2vegtabledominanceevennessheaderheader<-layers2samplesmake_cocktailnew_layernew_layer<-new_relationnew_relation<-read_juicerelation2headerrichnessset_formulaset_groupset_pseudoshannonshowsimpsonsubsetsummarytaxa2samplestrait_proportiontrait_statstv2coverconverttv2vegtableupdate_detused_conceptsused_synonymsveg_aggregateveg_diversityveg_relationveg_relation<-vegtable_statwrite_juice
Dependencies:askpassbase64encbibliobitbit64blobbslibcachemclicommonmarkcpp11crayoncrosstalkcrulcurlDBIdbplyrdigestdplyrDTevaluatefansifastmapfontawesomeforeignfsgenericsgluehighrhoardrhtmltoolshtmlwidgetshttpcodehttpuvhttrindicspeciesjquerylibjsonliteknitrlaterlatticelazyevallifecyclemagrittrmemoisemimeminiUIopensslpermutepillarpkgconfigplogrplyrpromisespurrrqdapRegexR6rappdirsRcpprcrossrefrlangrmarkdownRSQLitesassshinysourcetoolsspstringdiststringistringrsystaxlisttibbletidyrtidyselecttinytextriebeardurltoolsutf8vctrsvegdatawithrxfunxml2xtableyamlyamlme
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Merge relevés from data frames into vegtable objects | add_releves add_releves,vegtable,data.frame-method add_releves<- add_releves<-,vegtable,data.frame-method |
| Coerce objects to lists | as as.list,coverconvert-method as.list,vegtable-method coerce,coverconvert,list-method coerce,vegtable,list-method |
| Conversion of aspect classes to azimuth | aspect_conv aspect_conv-data |
| Conversion of Braun-Blanquet codes to cover percentage | braun_blanquet braun_blanquet-data |
| Clean orphaned records in vegtable object | clean clean,vegtable-method clean_once |
| Count taxa included in vegtable objects | count_taxa count_taxa,formula,vegtable-method count_taxa,vegtable,missing-method count_taxa<- count_taxa<-,vegtable,formula-method |
| Convert cover scales to percent cover | cover_trans cover_trans,character,coverconvert-method cover_trans,factor,coverconvert-method cover_trans,numeric,coverconvert-method cover_trans,vegtable,missing-method |
| Cover conversion tables | coverconvert coverconvert-class |
| Generating cross tables from database lists | cross2db cross2db,data.frame-method cross2db,matrix-method cross2db.data.frame cross2db.matrix crosstable crosstable,formula,data.frame-method crosstable,formula,vegtable-method |
| Create coverconvert objects | df2coverconvert df2coverconvert,data.frame-method df2coverconvert,list-method df2coverconvert.data.frame df2coverconvert.list |
| Convert a data frame into a vegtable object. | df2vegtable df2vegtable,data.frame,numeric,missing-method df2vegtable,data.frame,numeric,numeric-method |
| Dutch dune meadows as vegtable | dune_veg dune_veg-data |
| Select or replace elements in objects | $ $,coverconvert-method $,vegtable-method $<- $<-,coverconvert,coverconvert-method $<-,vegtable,ANY-method $<-,vegtable-method Extract [ [,coverconvert,ANY,ANY,ANY-method [,coverconvert-method [,vegtable,ANY,ANY,ANY-method [,vegtable-method [<- [<-,vegtable-method |
| Retrieve or replace slot header in vegtable objects | header header,vegtable-method header<- header<-,vegtable,data.frame-method |
| Vegetation-plots from Kenya | Kenya_veg Kenya_veg-data |
| Add information from slot 'layers' into slot 'samples' | layers2samples layers2samples,vegtable,character,character-method layers2samples,vegtable,character,missing-method |
| Produce a Cocktail classification | make_cocktail make_cocktail,shaker,vegtable-method set_formula set_formula,shaker,taxlist,character-method set_formula,shaker,vegtable,character-method set_group set_group,shaker,taxlist,character-method set_group,shaker,vegtable,character-method set_pseudo set_pseudo,shaker,taxlist,character-method set_pseudo,shaker,vegtable,character-method |
| Retrieve names of vegtable and coverconvert objects | dimnames dimnames,vegtable-method names names,coverconvert-method names,vegtable-method names<-,coverconvert-method |
| Insert new classification of vegetation layers | new_layer new_layer,vegtable,data.frame-method new_layer<- new_layer<-,vegtable,character-method new_layer<-,vegtable,data.frame-method |
| Insert a new variable as relation in vegtable object | new_relation new_relation,vegtable-method new_relation.vegtable new_relation<- new_relation<-,vegtable,character,character-method new_relation<-,vegtable,missing,character-method |
| Insert variables from relations into header | relation2header relation2header,vegtable-method relation2header.vegtable |
| Class containing Cocktail algorithms. | shaker shaker-class |
| Subset functions for vegtable objects | subset subset,vegtable-method |
| Summary method for vegtable objects | print,coverconvert-method print,shaker-method print,vegtable-method show,coverconvert-method show,shaker-method show,vegtable-method summary summary,coverconvert-method summary,shaker-method summary,vegtable-method |
| Insert taxon information into samples | taxa2samples taxa2samples,vegtable-method taxa2samples.vegtable |
| Statistics and proportion for taxon traits | trait_proportion trait_proportion,character,vegtable-method trait_proportion,formula,vegtable-method trait_stats trait_stats,character,vegtable-method trait_stats,formula,vegtable-method |
| Import of vegetation data from Turboveg databases | tv2coverconvert tv2vegtable |
| Update by determined specimens | update_det update_det,vegtable,character-method update_det,vegtable-method |
| Retrieve synonyms or taxon concepts used in a data set | used_concepts used_concepts,vegtable-method used_concepts.vegtable used_synonyms used_synonyms,vegtable-method used_synonyms.vegtable |
| Aggregating information into a data frame | veg_aggregate veg_aggregate,formula,vegtable,function-method |
| Calculation of statistics at plot level | dominance evenness richness shannon simpson veg_diversity veg_diversity,vegtable-method veg_diversity.vegtable veg_diverstiy |
| Information on vegetation layers | veg_layers veg_layers-data |
| Retrieve or replace relations in vegtable objects | veg_relation veg_relation,vegtable,character-method veg_relation<- veg_relation<-,vegtable,data.frame-method |
| General statistics from vegtable objects | vegtable_stat vegtable_stat,vegtable-method vegtable_stat.vegtable |
| Class vegtable. | vegtable vegtable-class |
| Vegetation-plots from Tanzania | Wetlands Wetlands-data Wetlands_veg |
| Exporting tables for Juice | read_juice write_juice write_juice,vegtable,character,formula-method |
