Lucy

Lucy trims low-quality regions and removes vector and contaminant sequences from raw DNA sequencing data to produce high-confidence input for downstream genomic analyses.

Key Features:

• Quality Trimming: Trims low-quality regions from DNA sequences generated by automatic sequencing machines, retaining high-confidence bases for downstream analysis.
• Vector Removal: Identifies and removes vector splice sites and contaminant sequences from raw reads to eliminate extraneous sequence artifacts.
• Handling Complex Cases: Optimized through iterative development to manage challenging input cases and balance removal of artifacts with retention of true sequence.

Scientific Applications:

• Fragment Assembly: Prepares cleaned reads for accurate assembly of DNA fragments into contiguous sequences.
• EST Clustering: Provides cleaned expressed sequence tags (ESTs) for clustering to support identification of gene expression patterns.

Methodology:

Operates on raw sequencing data to perform quality trimming and vector removal using algorithms refined through extensive use and iterative development at The Institute for Genomic Research (TIGR).