Ecosyste.ms: Awesome

An open API service indexing awesome lists of open source software.

Awesome Lists | Featured Topics | Projects

https://github.com/markvanderloo/stringdist

String distance functions for R
https://github.com/markvanderloo/stringdist

Last synced: 3 months ago
JSON representation

String distance functions for R

Awesome Lists containing this project

README 

        

[![CRAN](http://www.r-pkg.org/badges/version/stringdist)](http://cran.r-project.org/web/packages/stringdist/NEWS)

[![status](https://tinyverse.netlify.com/badge/stringdist)](https://CRAN.R-project.org/package=stringdist)

[![Downloads](http://cranlogs.r-pkg.org/badges/stringdist)](http://cran.r-project.org/package=stringdist/)[![Research software impact](http://depsy.org/api/package/cran/stringdist/badge.svg)](http://depsy.org/package/r/stringdist)[![Mentioned in Awesome Official Statistics ](https://awesome.re/mentioned-badge.svg)](http://www.awesomeofficialstatistics.org)



## stringdist



* Approximate matching, fuzzy text search, and string distance calculations for R. 

* All distance and matching operations are system- and encoding-independent.

* Built for speed, using [openMP](https://www.openmp.org/) for parallel computing.



## Citing



Please cite the [R-Journal article](https://journal.r-project.org/archive/2014/RJ-2014-011/index.html)



```

@article{RJ-2014-011,

  author = {Mark P.J. van der Loo},

  title = {{The stringdist Package for Approximate String Matching}},

  year = {2014},

  journal = {{The R Journal}},

  doi = {10.32614/RJ-2014-011},

  url = {https://doi.org/10.32614/RJ-2014-011},

  pages = {111--122},

  volume = {6},

  number = {1}

}

```



## Functionality 



The package offers the following main functions:



* `stringdist`  computes pairwise distances between two input character vectors (shorter one is recycled)

* `stringdistmatrix` computes the distance matrix for one or two vectors

* `stringsim` computes a string similarity between 0 and 1, based on `stringdist`

* `amatch` is a fuzzy matching equivalent of R's native `match` function

* `ain` is a fuzzy matching equivalent of R's native `%in%` operator

* `afind` finds the location of fuzzy matches of a short string in a long string.

* `seq_dist`, `seq_distmatrix`, `seq_amatch` and `seq_ain` for distances between, and matching of integer sequences. (see also the [hashr](https://github.com/markvanderloo/hashr) package).



These functions are built upon `C`-code that re-implements some common (weighted) string

distance functions. Distance functions include:



* Hamming distance; 

* Levenshtein distance (weighted);

* Restricted Damerau-Levenshtein distance (weighted, a.k.a. Optimal String Alignment);

* Full Damerau-Levenshtein distance (weighted);

* Longest Common Substring distance;

* Q-gram distance

* cosine distance for q-gram count vectors (= 1-cosine similarity)

* Jaccard distance for q-gram count vectors (= 1-Jaccard similarity)

* Jaro, and Jaro-Winkler distance

* Soundex-based string distance.



Also, there are some utility functions:



* `qgrams()` tabulates the qgrams in one or more `character` vectors.

* `seq_qrams()` tabulates the qgrams (somtimes called ngrams) in one or more `integer` vectors.

* `phonetic()` computes phonetic codes of strings (currently only soundex)

* `printable_ascii()` is a utility function that detects non-printable ascii or non-ascii characters.



#### C API



As of version `0.9.5.0`  you can call a number of `stringdist` functions directly

from the `C` code of your R package. The description of the API can be found 



- By typing `?stringdist_api` in the R console

- By browsing the package's help index to `User guides, package vignettes and other documentation` and clicking on `doc/stringdist_api.pdf`.

- Or you can find the file's location as follows



```

system.file("doc/stringdist_api.pdf", package="stringdist")

```



Examples of packages that link to `stringdist` can be found [here](https://github.com/markvanderloo/linkstringdist) and

[here](https://github.com/ChrisMuir/refinr).



#### Installation



To install the latest release from CRAN, open an R terminal and type



`install.packages('stringdist')`



To obtain the package from the very latest source code open a `bash` terminal (or `git bash` if you work under Windows

with `msysgit`) and type



```

git clone https://github.com/markvanderloo/stringdist.git

cd stringdist

bash ./build.bash

R CMD INSTALL output/stringdist_*.tar.gz

```



Warning: the github version can change any time and may not even build properly. As most

of the code is written in `C`, the development version may crash your `R`-session.



#### Resources



* A [paper](http://journal.r-project.org/archive/2014-1/loo.pdf) on stringdist has been published in the R-journal

* [Slides](http://www.slideshare.net/MarkVanDerLoo/stringdist-use-r2014) of te _useR!2014_ conference.



#### Note to users: deprecated arguments removed as of version 0.9.5.0



The following arguments have been obsolete since 2015 and have been removed in the 0.9.5.0 release (spring 2018)



* Argument `cluster` for function `stringdistmatrix`.

* Argument `maxDist` for functions `stringdist` and `stringdistmatrix` (not `amatch`).

* Argument `ncores` for function `stringdistmatrix` 



#### Note to users: deprecated arguments as of >= 0.9.0, >= 0.9.2



Parallelization used to be based on R's ```parallel``` package, that works by spawning several R sessions in the background. As of version 0.9.0, ```stringdist``` uses the more efficient ```openMP``` protocol to parallelize everything under the hood. 



The following arguments have become obsolete and will be removed somewhere in 2016:

* Argument `cluster` for function `stringdistmatrix`.

* Argument `maxDist` for functions `stringdist` and `stringdistmatrix` (not `amatch`).

* Argument `ncores` for function `stringdistmatrix`