blastp:tldr:24a68

blastp: Search protein databases using a protein query, 16 threads to use in the BLAST search, with a maximum number of 10 aligned sequences to keep.

blastp

$ blastp -query ${query-fa} -db ${blast_database_name} -num_threads ${16} -max_target_seqs ${10}

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Sure! Let's break down this command:

blastp: This is the name of the BLAST program that is being executed. In this case, it is the blastp program, which is used for protein-protein sequence comparisons.

-query ${query-fa}: This parameter specifies the query sequence or file to be used in the BLAST search. ${query-fa} is a variable that should be replaced with the actual name or path of the query sequence or file in the command.

-db ${blast_database_name}: This parameter specifies the database to use for the BLAST search. ${blast_database_name} is a variable that should be replaced with the actual name or path of the BLAST database to be searched against.

-num_threads ${16}: This parameter specifies the number of threads or parallel processes to use for the BLAST search. ${16} is a variable that should be replaced with the desired number of threads.

-max_target_seqs ${10}: This parameter specifies the maximum number of aligned sequences to keep from the BLAST search. In other words, it determines how many top hits are reported. ${10} is a variable that should be replaced with the desired maximum number of target sequences to keep.

In summary, this command performs a blastp search using a specific query sequence or file, against a specified BLAST database. It utilizes a specified number of threads for parallel processing and sets the maximum number of target sequences to keep.

This explanation was created by an AI. In most cases those are correct. But please always be careful and never run a command you are not sure if it is safe.

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