Get a List of Available BLAST options

Source: R/QuickBLAST.R

Use this function in blast_options to set BLAST defaults for the chosen BLAST program.

GetAvailableBLASTOptions()

Value

A List of Available BLAST options

Note

CREATE a NEW LIST with ONLY the OPTIONS THAT YOU NEED

Examples

opts <- QuickBLAST::GetAvailableBLASTOptions()
#> Warning: These are Defaults, CREATE a NEW LIST with ONLY the OPTIONS THAT YOU NEED (or) Use this function in blast_options to set BLAST defaults for the chosen BLAST program. (Options can also be given as a string '-evalue 1 -hit_list_size 10000')
print(opts)
#> $evalue
#> numeric(0)
#> 
#> $pident
#> numeric(0)
#> 
#> $gapped_mode
#> logical(0)
#> 
#> $filter_string
#> character(0)
#> 
#> $effective_search_space
#> integer(0)
#> 
#> $cutoff_score
#> integer(0)
#> 
#> $gap_trigger
#> numeric(0)
#> 
#> $gap_x_dropoff
#> numeric(0)
#> 
#> $gap_x_dropoff_final
#> numeric(0)
#> 
#> $hit_list_size
#> integer(0)
#> 
#> $low_score_percentage
#> numeric(0)
#> 
#> $max_hsp_per_subject
#> integer(0)
#> 
#> $max_hsp_per_sequence
#> integer(0)
#> 
#> $qcovhsp_perc
#> numeric(0)
#> 
#> $window_size
#> integer(0)
#>