Tool sets to analyze high throughput data for RNA modifications
Depends: GenomicFeatures, Rsamtools, ggplot2, doParallel, foreach,grid,rtracklayer,GenomicAlignments,reshape2,Rcpp,RcppArmadillo, Guitar, stringr,vcfR,gamlss, broom, DESeq2
install.packages("devtools")
library(devtools)
install_github("scottzijiezhang/MeRIPtools")
library("MeRIPtools")
Please refer to manual page for detailed instructions.
MeRIPtools is a tool sets that implemented functions for peak calling, QTL calling, differential methylation analysis, visualization.
If you used MeRIPtools in your publication, please cite: Zhang, Z., Luo, K., Zou, Z. et al. Genetic analyses support the contribution of mRNA N6-methyladenosine (m6A) modification to human disease heritability. Nat Genet 52, 939–949 (2020). https://doi.org/10.1038/s41588-020-0644-z
Note MeRIPtools also have wrapper functions to call functions from other R packages to do specific analysis.
If you used the plotMetaGene
or MetaGene
function, please cite the original R package Guitar
Cui X, Wei Z, Zhang L, Liu H, Sun L, Zhang s, Huang Y, Meng J (2016). “Guitar: an R/Bioconductor package for gene annotation guided transcriptomic analysis of RNA related genomic features.” BioMed Research International.
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.