Opened 13 years ago

Closed 13 years ago

#102 closed task (fixed)

Intensity calculator for Illumina SNP data

Reported by: Nicklas Nordborg Owned by: Nicklas Nordborg
Priority: major Milestone: Illumina package v1.0
Component: net.sf.basedb.illumina Keywords:
Cc:

Description

Since the raw data is stored in files, this plug-in needs to extract data from the files. The interesting columns are: GType, B Allele Freq and Log R Ratio. The hardest part is to find the correct reporter. First, the value from Address column from the data file is needed. This value should be looked up in the AdressA_ID column from the manifest file connected to the array design. More details will follow.

Change History (5)

comment:1 Changed 13 years ago by Nicklas Nordborg

Milestone: Illumina package v1.xIllumina package v1.0

comment:2 Changed 13 years ago by Nicklas Nordborg

Owner: changed from Johan Enell to Nicklas Nordborg
Status: newassigned

comment:3 Changed 13 years ago by Nicklas Nordborg

(In [624]) References #102: Intensity calculator for Illumina SNP data

The main parts are working. Need more testing and probably better error handling and/or configuration options.

comment:4 Changed 13 years ago by Nicklas Nordborg

(In [625]) References #102: Intensity calculator for Illumina SNP data

Added error handling. Improved performance by preloading reporters.

comment:5 Changed 13 years ago by Nicklas Nordborg

Resolution: fixed
Status: assignedclosed
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