1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
|
.\" DO NOT MODIFY THIS FILE! It was generated by help2man 1.47.5.
.TH CSB-CSFRAG "1" "November 2017" "csb-csfrag 1.2.5" "User Commands"
.SH NAME
csb-csfrag \- build a dynamic library of analogous fragments
.SH DESCRIPTION
usage: csb\-csfrag [\-h] \fB\-d\fR DATABASE \fB\-s\fR SHIFTS [\-w WINDOW] [\-t TOP] [\-c CPU]
.IP
[\-v VERBOSITY] [\-o OUTPUT] [\-f]
QUERY
.PP
CSfrag: build a dynamic library of analogous fragments, given a list of
assigned chemical shifts.
.SS "positional arguments:"
.TP
QUERY
query sequence (FASTA file)
.SS "optional arguments:"
.TP
\fB\-h\fR, \fB\-\-help\fR
show this help message and exit
.TP
\fB\-d\fR DATABASE, \fB\-\-database\fR DATABASE
PDBS25 database directory (containing PDBS25cs.scs)
.TP
\fB\-s\fR SHIFTS, \fB\-\-shifts\fR SHIFTS
assigned chemical shifts table (NMR STAR file
fragment)
.TP
\fB\-w\fR WINDOW, \fB\-\-window\fR WINDOW
sliding window size (default=8)
.TP
\fB\-t\fR TOP, \fB\-\-top\fR TOP
maximum number per starting position (default=25)
.TP
\fB\-c\fR CPU, \fB\-\-cpu\fR CPU
maximum degree of parallelism (default=4)
.TP
\fB\-v\fR VERBOSITY, \fB\-\-verbosity\fR VERBOSITY
verbosity level (default=1)
.TP
\fB\-o\fR OUTPUT, \fB\-\-output\fR OUTPUT
output directory (default=.)
.TP
\fB\-f\fR, \fB\-\-filtered\-map\fR
make an additional filtered fragment map of centroids
(default=False)
.SH AUTHOR
This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.
|
