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R_basis
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ddb6f0c0
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authored
4 years ago
by
Laurent Modolo
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# R formation
## Session 1
Introduction to R and RStudio
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R introduction
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RStudio interface
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numerical operation
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data structure
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functions
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R packages
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Examples
## Session 2
Introduction to tidyverse
In this session we play-back the steps of the creation of an Exel table
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numerical variable creation
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numerical operations
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string creation
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variable concatenation and variable type: paste0, typeof
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vector : lenght, head, summary
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data.frame : dim, ncol, nrow
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matrix
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list
## session 2
In this session we extract the list of differentially expressed genes from a
DESeq2 .csv output. We then extract only the up-regulated and down-regulated
genes.
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load a table: read.table, read.csv
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columns selection : boolean vector
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lines selection : boolean vector
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write a .csv and .Rdata file
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path, working-directory, and .Rhistory file
## session 3
In this session we counts the nucleotides in a sequences
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load .Rdata object with the sequence
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transformation between vector and string : split
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loop
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simple conditional testing : if else
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code wrapping within function
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script
## session n
Conversion of a fasta file into a GTF file
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list as hashing table
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regexp
## session n+1
Converting a nucleotide sequence into a protein sequence
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load codon to AA table
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build conversion function between codon and AA
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build conversion function for a sequence function
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use list as hashing table
## program
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