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Table 1 Tools and libraries used in the experimental setup

From: Optimizing performance of GATK workflows using Apache Arrow In-Memory data framework

Tools/APIs

Version

BWA-MEM [8]

0.7.17

Picard [13]

2.18.14

GATK [29]

4.0.12.0

Sambamba [14]

0.6.8

elPrep [41]

4.1.5

Arrow C/C++/Java [37]

0.11.0

PyArrow [50]

0.11.0

Plasma Object Store [39]

0.11.0

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BMC Genomics

ISSN: 1471-2164

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