Evaluation of next-generation sequencing software in mapping and assembly, J Hum Genet, vol.56, pp.406-420, 2011. ,
A survey of tools for variant analysis of next-generation genome sequencing data, Brief Bioinform, vol.15, issue.2, pp.256-78, 2014. ,
Churchill: an ultra-fast, deterministic, highly scalable and balanced parallelization strategy for the discovery of human genetic variation in clinical and population-scale genomics, Genome Biol, vol.16, issue.1, p.6, 2015. ,
Detecting and annotating genetic variations using the HugeSeq pipeline, Nat Biotechnol, vol.30, issue.3, pp.226-235, 2012. ,
Fast and accurate short read alignment with burrows-wheeler transform, Bioinformatics, vol.25, pp.1754-60, 2009. ,
The genome analysis toolkit: a mapreduce framework for analyzing next-generation dna sequencing data, Genome Res, vol.20, pp.1297-303, 2010. ,
, FASTQC
Cutadapt removes adapter sequences from high-throughput sequencing reads, EMBnet J, vol.17, pp.10-12, 2011. ,
, PicardTools
The sequence alignment/map format and samtools, Bioinformatics, vol.25, pp.2078-2087, 2009. ,
HTSeq-a Python framework to work with high-throughput sequencing data, Bioinformatics, vol.31, issue.2, pp.166-175, 2015. ,
Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences, Genome Biol, vol.11, p.86, 2010. ,
Taverna: a tool for the composition and enactment of bioinformatics workflows, Bioinformatics, vol.20, issue.17, pp.3045-54, 2004. ,
Integrating Taverna and Galaxy workflows with cloud computing support, BMC Bioinformatics, vol.13, issue.1, p.77, 2012. ,
An efficient and scalable analysis framework for variant extraction and refinement from population scale DNA sequence data, Genome Res, pp.2015176552-114 ,
,
Detection and characterization of novel sequence insertions using paired-end next-generation sequencing, Bioinformatics, vol.26, pp.1277-83, 2010. ,
Submit your next manuscript to BioMed Central and take full advantage of: ? Convenient online submission ? Thorough peer review ? No space constraints or color figure charges ? Immediate publication on acceptance ? Inclusion in PubMed, CAS, Scopus and Google Scholar ? Research which is freely available for redistribution, Nat Methods, vol.6, pp.677-81, 2009. ,