wiggleplotr is a tool to visualise RNA-seq read overage overlapping gene annotations. A key feature of wiggleplotr is that it is able rescale all introns of a gene to fixed length, making it easier to see differences in read coverage between neighbouring exons that can otherwise be too far away. Since wiggleplotr takes standard BigWig files as input, it can also be used to visualise read overage from other sequencing-based assays such as ATAC-seq and ChIP-seq.
This repostitory contains the development version of wiggleplotr. The latest stable version can be installed directly from Bioconductor:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("wiggleplotr")Alternatively, you can still install the development version using devtools:
library("devtools")
devtools::install_github("kauralasoo/wiggleplotr")However, the stable Bioconductor version is likely to be the best option for most people.
See the vignette for instructions on how to get started.
If you use this software for research, please cite the following paper in which it was first described: Transcriptional profiling of macrophages derived from monocytes and iPS cells identifies a conserved response to LPS and novel alternative transcription (Alasoo et al, 2015)