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-4.5)BarcodingR_1.0-3.zip(r-4.4)BarcodingR_1.0-3.zip(r-4.3)
BarcodingR_1.0-3.tgz(r-4.4-any)BarcodingR_1.0-3.tgz(r-4.3-any)
BarcodingR_1.0-3.tar.gz(r-4.5-noble)BarcodingR_1.0-3.tar.gz(r-4.4-noble)
BarcodingR_1.0-3.tgz(r-4.4-emscripten)BarcodingR_1.0-3.tgz(r-4.3-emscripten)
BarcodingR.pdf |BarcodingR.html✨
BarcodingR/json (API)
# Install 'BarcodingR' in R: |
install.packages('BarcodingR', repos = c('https://zhangab2008.r-universe.dev', 'https://cloud.r-project.org')) |
- TibetanMoth - Tibetan Moth
- pineMothCOI - Pine Moth COI
- pineMothITS1 - Pine Moth ITS1
- pineMothITS2 - Pine Moth ITS2
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 5 years agofrom:b84d618fe8. Checks:OK: 3 NOTE: 4. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Oct 29 2024 |
R-4.5-win | NOTE | Oct 29 2024 |
R-4.5-linux | NOTE | Oct 29 2024 |
R-4.4-win | NOTE | Oct 29 2024 |
R-4.4-mac | NOTE | Oct 29 2024 |
R-4.3-win | OK | Oct 29 2024 |
R-4.3-mac | OK | Oct 29 2024 |
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 |