The MSK, "mask", file contains
a list of probe sets to use in the MAS5 statistical expression algorithm
normalization or scaling function or the list of probe pairs to exclude
from the MAS5 statistical expression algorithm analysis.
The format of the MSK file is ASCII text.
The first line of the file defines the probe array type associated
with the probe sets and probe pairs. The probe sets and probe pairs are
defined in sections where the section starts with a "[Comp]" or "[Call]"
line. The MSK file may contain either the [Comp] or [Call] sections or
both.
The list of probe sets to use in the normalization or scaling
function are defined in the [Comp] section. Each line in this section
defines a single probe set. The section ends with the end of the file or
the start of the [Call] section.
The list of probe pairs to ignore are defined in the [Call] section.
Each line in this section defines a probe set and its probe pairs (one
based index) to exclude. A tag separates the probe set name from the
probe pairs. The probe pair numbers are separated by a comma and a range
may be defined using a dash. The section ends with the end of the file
or the start of the [Comp] section.
The following example defines two probe sets in the [Comp] section
and 2 probe sets in the [Call] section. The array type is "Hu6800".
Hu6800
[Comp]
A28102_at
AB000381_s_at
[Call]
A28102_at 17,18,19,20
AB000381_s_at 7
AC000064_cds2_at 18,19,20
AC002086_at 1-10,15-20
AC00001_at 1-20
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