|Version 78 (modified by 15 years ago) ( diff ),|
Plug-in and extensions download
This page provides easy access to BASE 1 and 2 plug-ins for users who prefer not to use the subversion repository for downloading the plug-ins
The latest stable BASE can be downloaded from the BASE 2 development site. The latest BASE 1 release is available from BASE 1.2.x development site and the latest BASE 1.2 plug-in development kit may be needed for some of the BASE 1 plug-ins.
Plug-ins created for BASE 2 do not work with BASE 1.x.
- Additional array platform support
Illumina plug-ins package: A package of plug-ins for working with Illumina Sentrix and Illumina SNP arrays. Works with BASE 2.9 and later
- Category empty
- Category empty
AffyArrayDesignBatchImporter: Imports batches of affymetrix array design into base 2. Works with BASE 2.2 and later
AnnotationTypeCvImporter: Import annotation type annd controlled vocabularies from a simple flat file into base 2. Works with BASE 2.0 and later
BatchDataImporter: Imports batches of data files into BASE, creating a single RawbioAssay for each file. Works with BASE 2.2 and later
Tab2MageExporter: Exports an experiment meta-data in the tab2mage specification from base 2. Works with BASE 2.2 and later
Tab2MageImporter: Imports raw data files and an experiment meta-data in the tab2mage specification into base 2. Works with BASE 2.2 and later
Affymetrix plug-in for BASE: Affymetrix normalization with RMAExpress or Plier
(download latest MD5). The Plier algorithm in this plug-in is superseded by the APT plug-in. Works with BASE 2.0 and later
APT: Affymetrix Power Tools execution plug-in. Currently apt-probeset-summarize and apt-probeset-geneotype from APT is acccessible through this plug-in. Works with BASE 2.4 and later
Normalization package: A package with different kinds of normalization plug-ins. Works with BASE 2.7 and later
- Quality Control (QC)
- Category empty
- WeNNI: Missing value imputation. Not released yet
BAFsegmentation: Segments B allele frequencies from SNP arrays to identify regions of allelic imbalance. Not released yet
GCRMA: Works with BASE 2.0 and later
Web client extensions
An extension mechanism was introduced in the BASE 2.7 web client. Extensions are mainly used for adding functionality the GUI, such as extra menus and buttons.
- FTP Server
- An extension that adds an FTP server to BASE, making it possible to upload/download files to/from BASE using regular FTP client software. This extensions is currently available as a beta. Works with BASE 2.8 and later.
- MEV Launcher
- Integrates BASE with TIGR MultiExperiment Viewer (MEV). Works with BASE 2.7 and later.
- Example extensions
- A package with several "Hello world" examples of extensions to the web client. Works with BASE 2.7 and later.
Example plug-ins for BASE2: A package with example plug-ins intended for the developer. Works with BASE 2.6 and later
- Web services
Web services examples for BASE 2: A package with a Java client application that uses web services to get information from a BASE 2 server. Works with BASE 2.6 and later
- Example extensions for the BASE web client: A package with several "Hello world" examples of extensions to the web client. Works with BASE 2.7 and later.
External BASE 2 plug-in developer sites
The MicroArray Datawarehouse Resource@LCB develops BASE plug-ins, please visit their development site at http://madr.lcb.uu.se/.
BASE 1.2 plug-ins
Plug-ins created for BASE 1.2 can be made to work in BASE 2 using the Base1PluginExecuter plug-in.
|ReplicateError||1.3 (MD5)||1.2.17+, 2.8||Not tested with BASE 1.2.17+ but expected to work.|
|Median/mean centering||2.1 (MD5)||1.2.17+, 2.8||Not tested with BASE 1.2.17+ but expected to work.|
|Merge BioAssay||2.1 (MD5)||1.2.17+, 2.8||Not tested with BASE 1.2.17+ but expected to work.|
|WeNNI||0.6||1.2.17+||Missing value imputation|
|BaseFile||1.0 (MD5)||1.2.17+, 2.8|| Java utility package for reading the BASEFile format. Required for many se.lu.onk-series plug-ins. |
Not tested with BASE 1.2.17+ but expected to work.