pegi3s/scipio repository overview

⁠This image belongs to a larger project called Bioinformatics Docker Images Project (http://pegi3s.github.io/dockerfiles⁠)

⁠(Please note that the original software licenses still apply)

This image facilitates the usage of Scipio⁠, a tool that can be used to locate the regions coding for a query protein sequence in a DNA target sequence, and thus to determine exact gene structures and reverse translations.

⁠Using the scipio image in Linux

You should adapt and run the following command: docker run --rm -v /your/data/dir:/data pegi3s/scipio bash -c "./main Genome Proteins"

In this command, you should replace:

• /your/data/dir to point to the directory that contains the input files you want to analyze.
• Genome to the name of the FASTA file containing the genome sequences.
• Proteins to the name of the FASTA file containing the protein sequences.

There are several options that can be used to control, for instance, the BLAT search. Please, check the Scipio Manual.