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relMix

Relationship Inference for DNA Mixtures

https://github.com/gdorum/relmix

Science Score: 13.0%

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    CITATION.cff file
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    codemeta.json file
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    .zenodo.json file
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    DOI references
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    Scientific vocabulary similarity
    Low similarity (13.1%) to scientific vocabulary
Last synced: 10 months ago · JSON representation

Repository

Relationship Inference for DNA Mixtures

Basic Info
Statistics
  • Stars: 3
  • Watchers: 1
  • Forks: 4
  • Open Issues: 0
  • Releases: 2
Created almost 8 years ago · Last pushed over 1 year ago
Metadata Files
Readme

README.Rmd 

---
output: github_document
---



```{r, echo = FALSE}
knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  fig.path = "README-"
)
```


[![R-CMD-check](https://github.com/gdorum/relMix/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/gdorum/relMix/actions/workflows/R-CMD-check.yaml)




# relMix

relMix analyses DNA mixtures involving relatives by computing likelihood ratios that can account for dropout and drop-in, mutations, silent alleles and population substructure. relMix can both be used to make inferences about the relationship between individuals in a DNA mixture such as in non-invasive prenatal paternity testing, and to identify contributors to a mixed DNA stain who may be related. Relationships are represented by pedigrees and can include kinship between more than two individuals. The main function is the graphical user interface ``` relMixGUI```. A tutorial can be found here: https://gdorum.github.io/relMix/articles/relMix.html

## Installation

Install from GitHub as follows:

``` r
 # First install devtools if needed
if(!require(devtools)) install.packages("devtools")
devtools::install_github("gdorum/relMix")
```

To provide pedigree plots, relMix uses the package `tkrplot`. However, this package has some compatibility issues with MacOS and hence is not included as a *hard* dependency. Users who wish to see pedigree plots in the results screen have to install the package `tkrplot` manually with

```{r gh-installation-tkrplot, eval = FALSE}
install.packages("tkrplot")
```

The `tkrplot` package will be loaded by relMix automatially, so users do not need to run `library("tkrplot")` in advance.

Owner

  • Login: gdorum
  • Kind: user

GitHub Events

Total
  • Release event: 1
  • Watch event: 1
  • Push event: 28
  • Pull request review event: 1
  • Pull request event: 2
  • Create event: 1
Last Year
  • Release event: 1
  • Watch event: 1
  • Push event: 28
  • Pull request review event: 1
  • Pull request event: 2
  • Create event: 1

Issues and Pull Requests

Last synced: 10 months ago

All Time
  • Total issues: 2
  • Total pull requests: 17
  • Average time to close issues: 8 months
  • Average time to close pull requests: 1 day
  • Total issue authors: 2
  • Total pull request authors: 5
  • Average comments per issue: 2.0
  • Average comments per pull request: 0.12
  • Merged pull requests: 16
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 3
  • Average time to close issues: N/A
  • Average time to close pull requests: about 4 hours
  • Issue authors: 0
  • Pull request authors: 2
  • Average comments per issue: 0
  • Average comments per pull request: 0.33
  • Merged pull requests: 3
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • gdorum (1)
  • thoree (1)
Pull Request Authors
  • knifecake (7)
  • gdorum (6)
  • magnusdv (3)
  • lihaicheng7003 (2)
  • thoree (1)
Top Labels
Issue Labels
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • cran 268 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 11
  • Total maintainers: 1
cran.r-project.org: relMix

Relationship Inference for DNA Mixtures

  • Versions: 11
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 268 Last month
Rankings
Dependent packages count: 29.8%
Dependent repos count: 35.5%
Average: 51.7%
Downloads: 89.7%
Maintainers (1)
guro.dorum@gmail.com
Last synced: 10 months ago

Dependencies

DESCRIPTION cran
  • R >= 3.5.0 depends
  • Familias * imports
  • gWidgets2 * imports
  • gWidgets2tcltk * imports
  • knitr * suggests
  • pander * suggests
  • rmarkdown * suggests
  • tkrplot * suggests