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This project is a tool for words edit similarity joins (a.k.a. all-pairs similarity search) under small (< 3) edit distance constraints. It works for Levenshtein/Hamming distances and words from any alphabet. The software was originally developed for joining amino-acid/nucleotide sequences from Adaptive Immune Repertoires, where the number of words is relatively large (10^5-10^6) and the average length of words is relatively small (10-100).
| Version: | 1.0.0 |
| Imports: | Rcpp (≥ 1.0.13), stats |
| LinkingTo: | Rcpp, RcppArmadillo |
| Suggests: | Matrix, testthat, stringdist |
| Published: | 2024-10-25 |
| DOI: | 10.32614/CRAN.package.RPatternJoin |
| Author: | Daniil Matveev [aut, cre], Martin Leitner-Ankerl [ctb, cph], Gene Harvey [ctb, cph] |
| Maintainer: | Daniil Matveev <dmatveev at sfsu.edu> |
| License: | MIT + file LICENSE |
| NeedsCompilation: | yes |
| Language: | en-US |
| Materials: | NEWS |
| CRAN checks: | RPatternJoin results |
| Reference manual: | RPatternJoin.pdf |
| Package source: | RPatternJoin_1.0.0.tar.gz |
| Windows binaries: | r-devel: RPatternJoin_1.0.0.zip, r-release: RPatternJoin_1.0.0.zip, r-oldrel: RPatternJoin_1.0.0.zip |
| macOS binaries: | r-release (arm64): RPatternJoin_1.0.0.tgz, r-oldrel (arm64): RPatternJoin_1.0.0.tgz, r-release (x86_64): RPatternJoin_1.0.0.tgz, r-oldrel (x86_64): RPatternJoin_1.0.0.tgz |
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.