HM
H. Mushtaq
Authored
20 records found
SparkRA
Enabling big data scalability for the GATK RNA-seq pipeline with apache spark
The rapid proliferation of low-cost RNA-seq data has resulted in a growing interest in RNA analysis techniques for various applications, ranging from identifying genotype–phenotype relationships to validating discoveries of other analysis results. However, many practical applicat
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SparkGA2
Production-quality memory-efficient Apache Spark based genome analysis framework
Due to the rapid decrease in the cost of NGS (Next Generation Sequencing), interest has increased in using data generated from NGS to diagnose genetic diseases. However, the data generated by NGS technology is usually in the order of hundreds of gigabytes per experiment, thus req
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SparkGA
A Spark Framework for Cost Effective, Fast and Accurate DNA Analysis at Scale
In recent years, the cost of NGS (Next Generation Sequencing) technology has dramatically reduced, making it a viable method for
diagnosing genetic diseases. The large amount of data generated by NGS technology, usually in the order of hundreds of gigabytes per experiment, have t
...
SparkGA
A Spark Framework for Cost Effective, Fast and Accurate DNA Analysis at Scale
In recent years, the cost of NGS (Next Generation Sequencing) technology has dramatically reduced, making it a viable method for
diagnosing genetic diseases. The large amount of data generated by NGS technology, usually in the order of hundreds of gigabytes per experiment, have t
...
SparkGA
A Spark Framework for Cost Effective, Fast and Accurate DNA Analysis at Scale
In recent years, the cost of NGS (Next Generation Sequencing) technology has dramatically reduced, making it a viable method for
diagnosing genetic diseases. The large amount of data generated by NGS technology, usually in the order of hundreds of gigabytes per experiment, have t
...
SparkGA
A Spark Framework for Cost Effective, Fast and Accurate DNA Analysis at Scale
In recent years, the cost of NGS (Next Generation Sequencing) technology has dramatically reduced, making it a viable method for
diagnosing genetic diseases. The large amount of data generated by NGS technology, usually in the order of hundreds of gigabytes per experiment, have t
...
The large amount of data generated by NextGeneration Sequencing (NGS) technology, usually in the order of hundreds of gigabytes per experiment, has to be analyzed quickly to generate meaningful variant results. The first step
in analyzing such data is to map those sequenced reads
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Sequence alignment is a core step in the processing of DNA and RNA sequencing data. In this paper, we present a high performance GPU accelerated library (GASAL) for pairwise sequence alignment of DNA and RNA sequences. The GASAL library provides accelerated kernels for local, glo
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Sequence alignment is a core step in the processing of DNA and RNA sequencing data. In this paper, we present a high performance GPU accelerated library (GASAL) for pairwise sequence alignment of DNA and RNA sequences. The GASAL library provides accelerated kernels for local, glo
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