Package: PolyPatEx 0.9.2
PolyPatEx: Paternity Exclusion in Autopolyploid Species
Functions to perform paternity exclusion via allele matching, in autopolyploid species having ploidy 4, 6, or 8. The marker data used can be genotype data (copy numbers known) or 'allelic phenotype data' (copy numbers not known).
Authors:
PolyPatEx_0.9.2.tar.gz
PolyPatEx_0.9.2.zip(r-4.5)PolyPatEx_0.9.2.zip(r-4.4)PolyPatEx_0.9.2.zip(r-4.3)
PolyPatEx_0.9.2.tgz(r-4.4-any)PolyPatEx_0.9.2.tgz(r-4.3-any)
PolyPatEx_0.9.2.tar.gz(r-4.5-noble)PolyPatEx_0.9.2.tar.gz(r-4.4-noble)
PolyPatEx_0.9.2.tgz(r-4.4-emscripten)PolyPatEx_0.9.2.tgz(r-4.3-emscripten)
PolyPatEx.pdf |PolyPatEx.html✨
PolyPatEx/json (API)
| # Install 'PolyPatEx' in R: |
| install.packages('PolyPatEx', repos = c('https://aleczwart.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/aleczwart/polypatex/issues
- FR_Genotype - Example genotype allele dataset
- GF_Phenotype - Example phenotype allele dataset
Last updated 9 years agofrom:328e042359. Checks:OK: 3 NOTE: 4. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 15 2024 |
| R-4.5-win | NOTE | Nov 15 2024 |
| R-4.5-linux | NOTE | Nov 15 2024 |
| R-4.4-win | NOTE | Nov 15 2024 |
| R-4.4-mac | NOTE | Nov 15 2024 |
| R-4.3-win | OK | Nov 15 2024 |
| R-4.3-mac | OK | Nov 15 2024 |
Exports:convertToPhenotfixCSVforeignAllelesgenotPPEinputDatamultilocusTypesphenotPPEpotentialFatherCountspotentialFatherIDspreprocessData
Dependencies:gtools
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Polyploid paternity exclusion by allele matching. | PolyPatEx-package |
| Convert a genotype allele dataset to a phenotype dataset | convertToPhenot |
| Tidy a comma separated value (CSV) file | fixCSV |
| Identify foreign alleles | foreignAlleles |
| Example genotype allele dataset | FR_Genotype |
| Simple paternity exclusion for genotype allele data | genotPPE |
| Example phenotype allele dataset | GF_Phenotype |
| Read in, check and preprocess the allele dataset | inputData |
| Genotype summaries | multilocusTypes |
| Simple paternity exclusion for phenotype allele data | phenotPPE |
| Count potential fathers | potentialFatherCounts |
| Identify potential fathers | potentialFatherIDs |
| Check and preprocess an allele dataset | preprocessData |
