Isaac Genome Alignment Software protocols

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Isaac Genome Alignment Software specifications

Information


Unique identifier OMICS_00289
Name Isaac Genome Alignment Software
Alternative name Isaac aligner
Software type Package/Module
Interface Command line interface
Restrictions to use None
Biological technology Illumina
Operating system Unix/Linux
Programming languages C++
Computer skills Advanced
Stability Stable
Maintained Yes
Wikipedia https://github.com/sequencing/isaac_aligner/wiki/Isaac-aligner

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  • person_outline Come Raczy <>

Publication for Isaac Genome Alignment Software

Isaac Genome Alignment Software in pipeline

2015
PMCID: 4492948
PMID: 26147798
DOI: 10.1371/journal.pone.0132180

[…] at ebi (ftp://ftp.1000genomes.ebi.ac.uk). reads generated by genome sequencing or downloaded from 1000 genomes project repository were aligned to the human hg19 reference genome sequence using isaac genome alignment software, and variant calling was performed using isaac variant caller with default parameters []., the gwascat database of snp-trait associations was downloaded (2014-08-19) […]


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Isaac Genome Alignment Software in publications

 (10)
PMCID: 5945874
PMID: 29748595
DOI: 10.1038/s41467-018-04175-y

[…] system and ligated with adapters for library formation. dna libraries were subjected to whole-genome sequencing using an illumina hiseq x ten sequencer at macrogen (south korea),. we used the isaac aligner to generate a bam file using the following parameters: ver. 01.14.03.12; mouse genome reference, mm10 from ucsc; base quality cutoff, 15; keep duplicate reads, yes; variable read length […]

PMCID: 5897357
PMID: 29650961
DOI: 10.1038/s41467-018-03672-4

[…] individual ii-1 (fig. ) using genomic dna extracted from peripheral blood. paired-end sequence reads were generated on an illumina hiseq 2000., sequencing reads were pre-processed by illumina with isaac aligner and variant caller (v2, illumina inc.) using human genome assembly grch37 as reference. variants were normalised, merged into multi-sample vcf files by chromosome using the gvcf […]

PMCID: 5895460
PMID: 28771251
DOI: 10.1038/gim.2017.119

[…] and data analysis were performed using bcl2fastq, and data were analyzed using illumina hiseq analysis software (has; version 2-2.5.55.1311). reads were mapped to the hg19 reference sequence using isaac genome alignment software (saac00776.15.01.27) (illumina) and snvs and small indel variants were called using starling (isaac variant caller; version 2.1.4.2). wgs data will be deposited […]

PMCID: 5362187
PMID: 28357411
DOI: 10.1212/NXG.0000000000000143

[…] of the national institute for health research bioresource rare disease project. a minimum coverage of 15x (95% of the genome) was obtained, with an average coverage of ∼30x. reads were aligned using isaac aligner (version 01.14) (illumina inc., great chesterford, uk) and mapped against the grch37 hg19 human assembly. single nucleotide variants and insertions/deletions were identified using isaac […]

PMCID: 5473640
PMID: 28220790
DOI: 10.1038/ncomms14500

[…] dna was fragmented using the covaris system and ligated with adaptors for library formation. dna libraries were subjected to wgs using an illumina hiseq x ten sequencer at macrogen. we used the isaac aligner to generate a bam file using the following parameters: ver. 01.14.03.12; human genome reference, hg19 from ucsc (original grch37 from ncbi, feb. 2009), mouse genome reference, mm10 […]


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Isaac Genome Alignment Software institution(s)
Illumina United Kingdom, Chesterford Research Park, Essex, UK ; Illumina, Inc., San Diego, CA, USA

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