cutadapt 1.12

cutadapt 1.12 trims adapter sequences, primers, poly-A tails, and other unwanted sequences from high-throughput sequencing reads to improve the accuracy of downstream analyses such as read mapping.

Key Features:

• Adapter, primer and poly-A removal: Finds and removes adapter sequences, PCR primers, and poly-A tails from sequencing reads.
• Error-tolerant trimming: Performs trimming with a high degree of error tolerance to accommodate sequencing errors.
• Multiple trimming algorithms: Implements two distinct adapter-trimming algorithms for different trimming strategies.
• Multi-platform support: Processes reads from 454, Illumina, and SOLiD platforms, including color-space data.

Scientific Applications:

• Read preprocessing for mapping: Prepares reads by removing non-target sequences to improve alignment and read mapping accuracy.
• RNA-seq data processing: Removes adapter and poly-A contamination from RNA sequencing reads prior to downstream analyses.
• Cross-platform sequencing workflows: Preprocesses data from 454, Illumina, and SOLiD experiments to enable consistent downstream analysis.

Methodology:

Performs error-tolerant adapter trimming using two distinct adapter-trimming algorithms and supports processing of color-space (SOLiD) reads.