AffymetrixProbeNameFilter (baseCode 1.1.19 API)

java.lang.Object
- ubic.basecode.datafilter.AbstractFilter<M,R,C,V>
- - ubic.basecode.datafilter.AffymetrixProbeNameFilter<M,R,C,V>

All Implemented Interfaces:

Filter<M,R,C,V>
```
public class AffymetrixProbeNameFilter<M extends Matrix2D<R,C,V>,R,C,V>
extends AbstractFilter<M,R,C,V>
```
Remove probes that have names meeting certain rules indicating they may have low reliability. This is targeted at cases like "AFFX", "_st", "_f_at" and so forth.

Author:

Paul Pavlidis

Field Summary

Fields
Modifier and Type	Field	Description
`static int`	`AFFX`	Filter probes that have the AFFX prefix.
`static int`	`F`	Filter probes that have the "_f_at" (family) tag.
`static int`	`G`	Filter probes that have the "_g_at" (group) tag.
`static int`	`ST`	Filter probes that contain the '_st' (sense strand) tag
`static int`	`X`	Filter probes that have the "_x_at" tag.

Fields inherited from class ubic.basecode.datafilter.AbstractFilter
log

Constructor Summary

Constructors
Constructor Description

AffymetrixProbeNameFilter()
Filter probes with all criteria switched on.

AffymetrixProbeNameFilter(int[] criteria)

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type Method Description

M filter(M data)
Filter the data
- Methods inherited from class ubic.basecode.datafilter.AbstractFilter
  getOutputMatrix
- Methods inherited from class java.lang.Object
  clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Field Detail
  - AFFX
```
public static final int AFFX
```
    Filter probes that have the AFFX prefix.
    
    See Also:
    
    Constant Field Values
  - F
```
public static final int F
```
    Filter probes that have the "_f_at" (family) tag.
    
    See Also:
    
    Constant Field Values
  - G
```
public static final int G
```
    Filter probes that have the "_g_at" (group) tag.
    
    See Also:
    
    Constant Field Values
  - ST
```
public static final int ST
```
    Filter probes that contain the '_st' (sense strand) tag
    
    See Also:
    
    Constant Field Values
  - X
```
public static final int X
```
    Filter probes that have the "_x_at" tag.
    
    See Also:
    
    Constant Field Values
- Constructor Detail
  - AffymetrixProbeNameFilter
```
public AffymetrixProbeNameFilter()
```
    Filter probes with all criteria switched on.
  - AffymetrixProbeNameFilter
```
public AffymetrixProbeNameFilter(int[] criteria)
```
    Parameters:
    
    criteria - int[] of constants indicating the criteria to use.
- Method Detail
  - filter
```
public M filter(M data)
```
    Description copied from interface: Filter
    
    Filter the data
    
    Parameters:
    
    data - a NamedMatrix. Some types of filters require that this be of a particular type of implementation of the Filter interface.
    
    Returns:
    
    The resulting filtered matrix