R package to help with workflow of building a strain library during isolation experiments. Allows you to preview, trim Sanger sequences before organizing into a fasta file that is ready to BLAST. Reads Blast results, and aligns sequences in order to build and curate a strain library
Install Instructions:
# if devtools package not yet installed, install devtools first
install.packages('devtools')
# you may need to install bioconductor dependencies if you have not done so previously
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Biostrings", version = "3.8")
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("DECIPHER", version = "3.8")
# loading devtools library
library(devtools)
# download and install isolationWorkflow
install_github("schyen/isolationWorkflow", build_vignette = TRUE)
# load isolationWorkflow package
library('isolationWorkflow')
To view the vignette:
browseVignettes(package = "isolationWorkflow")
And click html
Or you can see the instructions in the Wiki tab