very useful codes & packages in R

D <- apply(as.matrix(dat), 2, as.numeric)

d <- dat %>% group_by(Group) %>% summarise_if(is.numeric, mean, na.rm = TRUE)

HNSC_TT <- HNSC[ , grepl( "01A" , names(HNSC) ) ]

package Rsubread for fastq to bam/count

package DESeq2 for differently gene expression

package DOSE for GSEA

package yarrr

library(Hmisc)

res <- rcorr(as.matrix(data))