How To Install any2fasta-examples on Debian 12
Introduction
In this tutorial we learn how to install any2fasta-examples on Debian 12.
What is any2fasta-examples
any2fasta-examples is:
Established tools like readseq and seqret from EMBOSS, both create mangled IDs containing | or . characters, and there is no way to fix this behaviour. This resultes in inconsitences between .gbk and .fna versions of files in pipelines.
This script uses only core Perl modules, has no other dependencies like Bioperl or Biopython, and runs very quickly.
It supports the following input formats:
- Genbank flat file, typically .gb, .gbk, .gbff (starts with LOCUS)
- EMBL flat file, typically .embl, (starts with ID)
- GFF with sequence, typically .gff, .gff3 (starts with ##gff)
- FASTA DNA, typically .fasta, .fa, .fna, .ffn (starts with >)
- FASTQ DNA, typically .fastq, .fq (starts with @)
- CLUSTAL alignments, typically .clw, .clu (starts with CLUSTAL or MUSCLE)
- STOCKHOLM alignments, typically .sth (starts with # STOCKHOLM)
- GFA assembly graph, typically .gfa (starts with ^[A-Z]\t)
Files may be compressed with:
- gzip, typically .gz
- bzip2, typically .bz2
- zip, typically .zip
This package contains some example data for testing.
There are three methods to install any2fasta-examples on Debian 12. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install any2fasta-examples Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install any2fasta-examples using apt-get by running the following command:
sudo apt-get -y install any2fasta-examples
Install any2fasta-examples Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install any2fasta-examples using apt by running the following command:
sudo apt -y install any2fasta-examples
Install any2fasta-examples Using aptitude
If you want to follow this method, you might need to install aptitude first since aptitude is usually not installed by default on Debian. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install any2fasta-examples using aptitude by running the following command:
sudo aptitude -y install any2fasta-examples
How To Uninstall any2fasta-examples on Debian 12
To uninstall only the any2fasta-examples package we can use the following command:
sudo apt-get remove any2fasta-examples
Uninstall any2fasta-examples And Its Dependencies
To uninstall any2fasta-examples and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove any2fasta-examples
Remove any2fasta-examples Configurations and Data
To remove any2fasta-examples configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge any2fasta-examples
Remove any2fasta-examples configuration, data, and all of its dependencies
We can use the following command to remove any2fasta-examples configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge any2fasta-examples
Dependencies
any2fasta-examples have the following dependencies:
References
Summary
In this tutorial we learn how to install any2fasta-examples package on Debian 12 using different package management tools: apt, apt-get and aptitude.
