This is the command cm_to_wigeon 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
cm_to_wigeon - helper for wigeon (Pintail 16S DNA anomaly detection)
DESCRIPTION
Unfortunately this tools that comes in connection with wigeon(1) is not documented but it
regards the options below. If you know better about its purpose please drop us a note
using reportbug on your Debian system.
OPTIONS
Required:
--query_NAST
multi-fasta file containing query sequences in alignment format
--db_NAST
db in NAST format
--db_FASTA
db in fasta format (megablast formatted)
Common options
-n number of top matching database sequences to compare to (default 15)
-R min divergence ratio default: 1.007
-P min percent identity among matching sequences (default 90)
Parameters to tune ChimeraMaligner:
Scoring parameters:
-M match score (default: +5)
-N mismatch penalty (default: -4)
-Q min query coverage by matching database sequence (default: 70)
-T maximum traverses of the multiple alignment (default: 1)
Flags:
--printAlignments
(default off)
-v verbose
--exec_dir
cd here before running
Use cm_to_wigeon online using onworks.net services
