.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.47.5.
.TH CSB-BFITE "1" "November 2017" "csb-bfite 1.2.5" "User Commands"
.SH NAME
csb-bfite \- models non-rigid displacements in protein ensembles with outlier-tolerant probability distributions
.SH DESCRIPTION
usage: csb\-bfite [\-h] [\-c CHAIN] [\-s {student,k}] [\-a ALIGNMENT] [\-o OUTFILE]
.IP
[\-n NITER]
pdb
.PP
Python application for robust structure superposition of an ensemble of
structures. bfite models non\-rigid displacements in protein ensembles with
outlier\-tolerant probability distributions.
.SS "positional arguments:"
.TP
pdb
full path to the ensemble
.SS "optional arguments:"
.TP
\fB\-h\fR, \fB\-\-help\fR
show this help message and exit
.TP
\fB\-c\fR CHAIN, \fB\-\-chain\fR CHAIN
Chain (default=A)
.TP
\fB\-s\fR {student,k}, \fB\-\-scalemixture\fR {student,k}
Scale mixture distribution (default=student)
.TP
\fB\-a\fR ALIGNMENT, \fB\-\-alignment\fR ALIGNMENT
Alignment in fasta format defining equivalent
positions Assumes that chain1 is the first sequence of
the alignment and chain2 the second sequence
.TP
\fB\-o\fR OUTFILE, \fB\-\-outfile\fR OUTFILE
file to which the rotated second structure will be
written (default=bfit.pdb)
.TP
\fB\-n\fR NITER, \fB\-\-niter\fR NITER
Number of optimization steps (default=200)
.SH AUTHOR
This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.