%0 Journal Article %1 VanderAuwera:2013:Curr-Protoc-Bioinformatics:25431634 %A Van der Auwera, G A %A Carneiro, M O %A Hartl, C %A Poplin, R %A Del Angel, G %A Levy-Moonshine, A %A Jordan, T %A Shakir, K %A Roazen, D %A Thibault, J %A Banks, E %A Garimella, K V %A Altshuler, D %A Gabriel, S %A DePristo, M A %D 2013 %J Curr Protoc Bioinformatics %K bioinformatics fulltext gatk methods shouldread software variant-calling %P 1-11 %R 10.1002/0471250953.bi1110s43 %T From FastQ data to high confidence variant calls: the Genome Analysis Toolkit best practices pipeline %U https://pubmed.ncbi.nlm.nih.gov/25431634/ %V 43 %X This unit describes how to use BWA and the Genome Analysis Toolkit (GATK) to map genome sequencing data to a reference and produce high-quality variant calls that can be used in downstream analyses. The complete workflow includes the core NGS data processing steps that are necessary to make the raw data suitable for analysis by the GATK, as well as the key methods involved in variant discovery using the GATK.

@article{VanderAuwera:2013:Curr-Protoc-Bioinformatics:25431634, abstract = {This unit describes how to use BWA and the Genome Analysis Toolkit (GATK) to map genome sequencing data to a reference and produce high-quality variant calls that can be used in downstream analyses. The complete workflow includes the core NGS data processing steps that are necessary to make the raw data suitable for analysis by the GATK, as well as the key methods involved in variant discovery using the GATK. }, added-at = {2020-08-30T11:27:14.000+0200}, author = {Van der Auwera, G A and Carneiro, M O and Hartl, C and Poplin, R and Del Angel, G and Levy-Moonshine, A and Jordan, T and Shakir, K and Roazen, D and Thibault, J and Banks, E and Garimella, K V and Altshuler, D and Gabriel, S and DePristo, M A}, biburl = {https://www.bibsonomy.org/bibtex/2523a34a3518043037793e3ac5b5c6734/marcsaric}, description = {From FastQ data to high confidence variant calls: the Genome Analysis Toolkit best practices pipeline - PubMed}, doi = {10.1002/0471250953.bi1110s43}, interhash = {a02d4e0d3af345903642e00be76872f9}, intrahash = {523a34a3518043037793e3ac5b5c6734}, journal = {Curr Protoc Bioinformatics}, keywords = {bioinformatics fulltext gatk methods shouldread software variant-calling}, pages = {1-11}, pmid = {25431634}, timestamp = {2020-08-30T11:27:14.000+0200}, title = {From FastQ data to high confidence variant calls: the Genome Analysis Toolkit best practices pipeline}, url = {https://pubmed.ncbi.nlm.nih.gov/25431634/}, volume = 43, year = 2013 }