Package: BarcodingR 1.0-3
BarcodingR: Species Identification using DNA Barcodes
To perform species identification using DNA barcodes.
Authors:
BarcodingR_1.0-3.tar.gz
BarcodingR_1.0-3.zip(r-4.7)BarcodingR_1.0-3.zip(r-4.6)BarcodingR_1.0-3.zip(r-4.5)
BarcodingR_1.0-3.tgz(r-4.6-any)BarcodingR_1.0-3.tgz(r-4.5-any)
BarcodingR_1.0-3.tar.gz(r-4.7-any)BarcodingR_1.0-3.tar.gz(r-4.6-any)
BarcodingR_1.0-3.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
BarcodingR/json (API)
| # Install 'BarcodingR' in R: |
| install.packages('BarcodingR', repos = c('https://zhangab2008.r-universe.dev', 'https://cloud.r-project.org')) |
- pineMothCOI - Pine Moth COI
- pineMothITS1 - Pine Moth ITS1
- pineMothITS2 - Pine Moth ITS2
- TibetanMoth - Tibetan Moth
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:b84d618fe8. Checks:7 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | NOTE | 124 | ||
| source / vignettes | OK | 147 | ||
| linux-release-x86_64 | NOTE | 109 | ||
| macos-release-arm64 | NOTE | 190 | ||
| macos-oldrel-arm64 | NOTE | 200 | ||
| windows-devel | NOTE | 98 | ||
| windows-release | NOTE | 84 | ||
| windows-oldrel | NOTE | 93 | ||
| wasm-release | OK | 93 |
Exports:barcodes.evalbarcoding.gapbarcoding.spe.identifybarcoding.spe.identify2bbsikchar2NumVectorcompare2delimitationsconsensus.identifydigitize.DNADNAbin2kmerFreqMatrixFMFFMFtheta12NAMESoptimize.kmersample.refsave.idssummarize.refTDR2
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Barcodes Evaluation | barcodes.eval |
| Barcoding Gap Calculation | barcoding.gap |
| Species Identification using Protein-coding Barcodes | barcoding.spe.identify |
| Species Identification Based on Fuzzy-set Method and kmer | barcoding.spe.identify2 |
| Bp Barcoding Species Identify using Kmer | bbsik |
| Character to Integer Vector | char2NumVector |
| Comparision between two Delimitations | compare2delimitations |
| Consensus Identification | consensus.identify |
| Digitize DNAbin | digitize.DNA |
| Calculation of Kmer Frequency Matrix from DNAbin for Both Reference and Query Sequences | DNAbin2kmerFreqMatrix |
| Fuzzy Membership Function Value | FMF |
| Calculate Intraspecific and Interspecific Variation | FMFtheta12 |
| Extracts Lables of Samples | NAMES |
| Optimize kmer Length | optimize.kmer |
| pine Moth COI | pineMothCOI |
| pine Moth ITS1 | pineMothITS1 |
| pine Moth ITS2 | pineMothITS2 |
| Sample Random Datasets from References (DNAbin) | sample.ref |
| Save Identifications | save.ids |
| Summarize Reference Data | summarize.ref |
| TDR2 Species Membership Value | TDR2 |
| Tibetan Moth | TibetanMoth |
