Opened 13 years ago

Last modified 12 years ago

#119 reopened task

Create rank invariant normalizer

Reported by: Jari Häkkinen Owned by: Martin Svensson
Priority: major Milestone: Normalization package v1.1
Component: net.sf.basedb.normalizers Keywords:
Cc:

Description


Change History (13)

comment:1 Changed 13 years ago by Martin Svensson

Component: net.sf.basedb.examples.extensionsnet.sf.basedb.normalizations
Milestone: ZZ Other ticketsNormalization package

comment:2 Changed 13 years ago by Martin Svensson

Status: newassigned

comment:3 Changed 13 years ago by Martin Svensson

(In [751]) References #119 Bug-fixing

comment:4 Changed 13 years ago by Martin Svensson

Resolution: fixed
Status: assignedclosed

(In [752]) Fixes #119 Create Rank Invariant normalization

comment:5 Changed 13 years ago by Martin Svensson

(In [754]) References #119 Change to only create a row summary array if it has not been created before.

comment:6 Changed 12 years ago by Jari Häkkinen

Resolution: fixed
Status: closedreopened

The normalizer is not the rank invariant normalizer but rather quantile normalizer. Created another ticket:165 for the quantile normalizer.

comment:7 Changed 12 years ago by Martin Svensson

(In [950]) References #119 Moved some method from the QuantileNormalization? plugin to the abstract plugin class. These method will be needed in other plugins too.

comment:8 Changed 12 years ago by Martin Svensson

(In [951]) References #119 Added plugin-class. The plugin doesn't really do anything yet, it is only an empty shell.

comment:9 Changed 12 years ago by Martin Svensson

(In [966]) References #119 Part of the normalization algorithm is implemented

comment:10 Changed 12 years ago by Martin Svensson

(In [967]) References #119 The plug-in is mostly ready for testing

comment:11 Changed 12 years ago by Martin Svensson

(In [975]) References #119 Some changes in the calculation-part. The plug-in runs through but the result has not been verified.

comment:12 Changed 12 years ago by Martin Svensson

(In [977]) References #119 Corrected the calculation of relative rank between sample gene and master gene.

comment:13 Changed 12 years ago by Martin Svensson

This normalizer needs to be tested/verified with real data before the development can proceed.

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