skewer

This program implements a novel dynamic programming algorithm dedicated to the task of adapter trimming and it is specially designed for processing illumina paired-end sequences.

Features

Detection and removal of adapter sequences
Insertion and deletion allowed in pattern matching
Targeted at Single End, Paired End (PE), and Long Mate Pair (LMP) reads
Demultiplexing of barcoded sequencing runs
Multi-threading support
Trimming based on phred quality scores
IUPAC characters for barcodes and adapters
Compressed input and output support

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mdziemann Posted 2015-08-05

Great solution for quality trimming and adapter clipping of Illumina seq data. Very fast and easy to run. Perfect for paired-end reads as it retains read ordering.

1 user found this review helpful.

Additional Project Details

Operating Systems

Linux

Intended Audience

Science/Research

Programming Language

C++

Related Categories

C++ Bio-Informatics Software

Registered

2013-09-09

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