Custom Sequence Annotation (CSA)

CSA Screenshots

Process Options

Phred Parameters

EST Parameters

Repeat Masker Parameters

UI Cluster Options

Blast Options

Summary Page

Blast Summary

Clone Summary

Cluster Viewer

What is Custom Sequence Annotation (CSA)?

We have developed an EST sequence processing and annotation pipeline to process 3' and 5' sequence data derived from cDNA clones. This pipeline supports all types of cDNA libraries-single-tissue or pooled, normalized or subtracted from any species.

The pipeline consists of five major components:

Raw Data Gathering and Archival
Quality Assessment and Sequence Editing (Feature Identification)
Sequence Annotation
Novelty Assessment
Description or Submission to local and public databases.

UICluster Parallel Execution:

Uses MPI for communication (MPICH)
Distributes clusters evenly across multiple compute nodes
Global hash table searched in parallel
Communication performed after each input sequence is clustered

This software may be downloaded free under the GNU Public License.

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