Accessing and Manipulating Biological Databases Exercises (Part 2)
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In the exercises below we cover how we can Access and Manipulate Biological Data bases through rentrez & Seqinr packages
Install Packages
rentrez
seqinr
Answers to the exercises are available here.
If you obtained a different (correct) answer than those listed on the solutions page, please feel free to post your answer as a comment on that page.
Exercise 1
Read a Fasta File in your current directory and print the sequence
Exercise 2
Read a Fasta File in your current directory and print the length of the sequences
Exercise 3
Read a Fasta File in your current directory and count each nucleotide in the file.
Exercise 4
Read a Fasta File in your current directory and print the details of the sequences
Exercise 5
Read a Fasta File in your current directory and count all dinucleotides in the file.
- import data into R in several ways while also beeing able to identify a suitable import tool
- use SQL code within R
- And much more
Exercise 6
Read a Fasta File in your current directory and print the GC contents
Exercise 7
Read a Fasta File in your current directory and print sequences as characters.
Exercise 8
Open the Nucleotide Fasta file and translate the sequences to Amino acids in Forward Translation
Exercise 9
Open the Nucleotide Fasta file and translate the sequences to Amino acids in Reverse Translation
Exercise 10
Open the Nucleotide Fasta file and translate the sequences to Amino acids and print the three letter codons of the translated amino acids
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