Overlapper

Overlapper outputs a confusion matrix for two discretized input DAT/DAB files, usually gold standards. This summarizes the degree to which the two inputs overlap and agree (or disagree) for all pairwise scores.

Usage

Basic Usage

 Overlapper -i <data1.dab> -I <data2.dab>

Outputs a confusion matrix comparing values for gene pairs in data1.dab and data2.dab, both of which must have associated QUANT files.

Detailed Usage

package "Overlapper"
version "1.0"
purpose "Comparison of two answer files"

section "Main"
option  "first"     i   "First DAB file"
                        string  typestr="filename"  yes
option  "second"    I   "Second DAB file"
                        string  typestr="filename"  yes

section "Optional"
option  "memmap"    m   "Memory map input files"
                        flag    on
option  "verbosity" v   "Message verbosity"
                        int default="5"

Flag	Default	Type	Description
-i	None	DAT/DAB file	First input DAT/DAB file to inspect.
-I	None	DAT/DAB file	Second input DAT/DAB file to inspect.
-m	off	Flag	If given, memory map the input files when possible. DAT and PCL inputs cannot be memmapped.