This is the command coils-wrap 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
coils-wrap - runs ncoils three times to give you a three-window output
SYNOPSIS
coils-wrap [OPTION]
DESCRIPTION
coils-wrap runs ncoils three times to give you a three-window output.
ncoils is a program that compares a sequence to a database of known parallel two-stranded
coiled-coils and derives a similarity score. By comparing this score to the distribution
of scores in globular and coiled-coil proteins, the program then calculates the
probability that the sequence will adopt a coiled-coil conformation.
OPTIONS
-i input file in FASTA format
-o output file
-r raw output file, default: `<output file>_raw'
-m matrix type; set matrix (MTK or MTIDK)
-w weight a&d = b,c,e,f&g (boolean)
EXAMPLES
"coils-wrap -m MTIDK -i /usr/share/doc/ncoils/1srya.fa -o /tmp/coils.out -r
/tmp/coils_raw.txt && less /tmp/coils.out /tmp/coils_raw.txt"
"ncoils -win 14 < /usr/share/doc/ncoils/1srya.fa"
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