README.md

R formation

session 1

In this session we play-back the steps of the creation of an Exel table

• numerical variable creation
• numerical opperations
• string creatation
• variable concatenation and variable type: paste0, typeof
• vector : lenght, head, summary
• data.frame : dim, ncol, nrow
• matrix
• list

session 2

In this session we extract the list of differentillay expressed genes from a DESeq2 .csv output. We then extract only the up-regulated and down-regulated genes.

• load a table: read.table, read.csv
• columns selection : boolean vector
• lines selection : boolean vector
• write a .csv and .Rdata file
• path, working-directory, and .Rhistory file

session 3

In this session we counts the nucleotides in a sequences

• load .Rdata object with the sequence
• transformation between vector and string : split
• loop
• simple conditional testing : if else
• code wrapping within function
• script

session n

Conversion of a fasta file into a GTF file

• list as hashing table
• regexp

session n+1

Converting a nucleotide sequence into a protein sequence

• load condon to AA table
• build conversion function between codon and AA
• build conversion function for a sequence function
• use list as hashing table