This is the command NAST-iEr that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
NAME
nast-ier - NAST-based DNA alignment tool
DESCRIPTION
The NAST-iEr alignment utility aligns a single raw nucleotide sequence against one or more
NAST formatted sequences.
The alignment algorithm involves global dynamic programming profile alignment to fixed
(NAST-formatted) multiply aligned template sequences without any end-gap penalty.
NAST-iEr is part of the microbiomeutil suite.
OPTIONS
Required:
--query_FASTA
query database in FASTA format (seqs to NAST-align)
Optional: (unless defaults are not set!)
--db_NAST
reference database in NAST format (default:
/usr/share/microbiomeutil-data/RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta)
--db_FASTA
reference database in FASTA format (default:
/usr/share/microbiomeutil-data/RESOURCES/rRNA16S.gold.fasta)
--num_top_hits
number of top hits to use for profile-alignment (default: 10)
--Evalue
Evalue cutoff for top hits (default: 1e-50)
Use NAST-iEr online using onworks.net services