Readme.md

In jframi/snpclust: Utilities for calling SNPs from fluorescence data

Version 0.2 (01/09/2017)

Installation

Install devtools package if not already done

install.packages(devtools)

Load devtools then install snpclust package

library(devtools)
install_github("jframi/snpclust")

Then load snpclust

library(snpclust)

Usage

Shiny app for manual clustering

After installing the package, the shiny app can be run using:

runmanclust()

Choose an input file that contain fluorescence values and calls for one or several SNPs and one or several DNA plates. Adjust the file format to read correctly the input file. Match the columns of your file to the column that the app is expecting Then select a SNP and possibly a Plate to display a scatter plot of fluorescence values. You can switch to Show New Call view, select individual genotypes in the plot using the lasso tool, and recall selected points.

jframi/snpclust documentation built on July 27, 2020, 9:31 a.m.