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Many sequence aligners used the power of GPUs to enhance the performance of BWA.
Many sequence aligners which use big data technologies like Apache Hadoop and Spark were implemented in last few years.
Our concerns are related to the following issues: 1. Concerns about the experimental design: The experiment claims to measure the accuracy, and in particular the sensitivity and FDR rate, for many sequence aligners.
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Already many Spark based sequence aligners are proposed by researchers.
Many state-of-the-art sequence aligners are developed to handle this huge amount of data efficiently but NGS platforms are evolving so rapidly that they push sequencing capacity to unprecedented levels.
These sequence aligners are very fast and efficient.
Website and code for sequence aligners like SeqMapReduce are inaccessible.
StreamAligner is compared to best existing sequence aligners in terms of speed and accuracy and it outperforms all existing sequence aligners.
StreamAligner has two main advantages over state-of-the-art sequence aligners.
Current state-of-the-art sequence aligners are very accurate and efficient.
Most of the recent sequence aligners like BigBWA, SparkBWA, and Halvade use BWA for index generation.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com