snapmine enables querying junction inclusion of cryptic exons or other
junctions of interest in bulk. Its initial use is described in the
manuscript Large-scale RNA-seq mining reveals ciclopirox triggers
TDP-43 cryptic exons which was published in Nature
Communications.
Please install this package using remotes.
install.packages("remotes")
library(remotes)
remotes::install_github("irikas/snapmine")
library(snapmine)An introductory vignette on how to use this package can be found within
the “vignettes” directory. Using GitHub & BitBucket HTML Preview, you
can also view it
here.
For querying only a few junctions, it may be easier to use the online interface.
Below is Figure 1 from the publication. 1A is a schematic of the
SnapMine algorithm.
