NAME
mcxalter - various network transformations
SYNOPSIS
mcxalter [-imx <fname> (specify matrix/graph input)] [-abc <fname> (specify label input)] [-tab <fname> (use tab file)] [-icl <fname> (specify cluster input)] [--block (use within-cluster edges)] [--blockc (use between-cluster edges)] [-o <fname> (output)] [-tf spec (apply tf-spec to input matrix)]
DESCRIPTION
This utility supplies various transformations of networks.
OPTIONS
-abc
<fname> (label input)
The file name for input that is in label format.
-imx
<fname> (input matrix)
The file name for input that is in mcl native matrix
format.
-tab
<fname> (use tab file)
This option causes the output to be printed with the labels
found in the tab file. With -abc this option will,
additionally, construct a graph only on the labels found in
the tab file. If this option is used in conjunction with
-imx the tab domain and the matrix domain are
required to be identical.
-icl
<fname> (specify cluster input)
Read in a cluster file for use with either --block or
--blockc.
--block
(use within-cluster edges)
Remove between-cluster edges from the network. This is done
first, before other transformations take effect.
--blockc
(use between-cluster edges)
Remove within-cluster edges from the network. This is done
first, before other transformations take effect.
-tf
<tf-spec> (transform input matrix values)
Transform the input matrix values according to the syntax
described in mcxio(5).
-o fname
(output file)
Output file.
AUTHOR
Stijn van Dongen.
SEE ALSO
mcxio(5), mcx(1), mcxsubs(1), and mclfamily(7) for an overview of all the documentation and the utilities in the mcl family.