Pladipus-Blast

Pladipus-blast is a module for blast related operations.


Note that the discussed parameters are the ones mandatory for pladipus execution. For more detailed parameters, please refer to the respective pages.


1. BlastSetupStep

This step manages the storage of temporary input files. It downloads the files to a temp folder for downstream BLAST operations.

Parameter Meaning
query input file in the FASTA format (the search query)
db input file in the FASTA format (the search database)

2. MakeBlastDbStep

This step preprocesses the input data and sets up a blast database. It renders sequence database files compatible with the BLAST algorithm.

The following parameters are required:

Parameter Meaning
query input file in the FASTA format (the search query)
db input file in the FASTA format (the search database)
dbtype the type of the database, conform the BLAST documentation
blast_folder sequence database file in FASTA format

3. BlastStep

This step manages the execution of the BLAST command line. It requires the following parameters (next to the ones specified by the BLAST documentation).

Parameter Meaning
query input file in the FASTA format (the search query)
db input file in the FASTA format (the search database)
blast_type the type of the BLAST, conform the BLAST documentation
blast_folder sequence database file in FASTA format
output the output folder for the BLAST results