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DNAnexus specifications


Unique identifier OMICS_01217
Name DNAnexus
Software type Framework/Library
Interface Command line interface
Restrictions to use License purchase required
Operating system Unix/Linux
Parallelization MapReduce
Computer skills Advanced
Stability Stable
High performance computing Yes
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/DNAnexus


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DNAnexus in publications

PMCID: 5946489
PMID: 29747653
DOI: 10.1186/s13046-018-0754-y

[…] dna affinity column. the amplified dna was subjected to high-throughput ngs sequencer (illumina gaii; genomic center yang ming university, taiwan). sequencing data were further analyzed by dnanexus chip-seq algorithm. significantly enriched and differentially methylated genes (experimental versus background ≥1.5) in c666.1 when compared with that of the np69 were identified (fig. ). […]

PMCID: 5903675
PMID: 29621230
DOI: 10.1371/journal.pgen.1007321

[…] exome sequencing was performed on a female patient using the nimblegen seqcap ez human exome v2 enrichment panel on the hiseq2000 (illumina inc.). data analysis was performed with dna nexus (dnanexus inc.; dnanexus.com). variants were filtered for their absence in dbsnp and non-coding and synonymous variants were excluded. as published previously, we already defined a linkage region […]

PMCID: 5869593
PMID: 29588463
DOI: 10.1038/s41598-018-23520-1

[…] protocol. the captured libraries were sequenced with illumina nextseq500 with 150-bp paired-end reads., a specific custom pipeline for illumina nextera technology implemented on the commercial dnanexus platform (https://www.dnanexus.com/) was used for the bioinformatics analysis as previously described,. briefly, prinseq-lite v0.20.3 was used to calculate read statistics, and bwa-mem […]

PMCID: 5869288
PMID: 29618047
DOI: 10.1093/gigascience/giy009

[…] kit and sequenced on a single rapid-run lane of hiseq 4000 2 × 100 bp paired end, yielding 153m reads., we performed initial data processing using smrtanalysis 3.1 iso-seq pipeline using a dnanexus interface. from 40 smrtcells, we produced 440.75 gb of raw data, which was classified into 3.4 gb of non-chimeric circular consensus (ccs) reads. ccs reads comprised 1.23m full-length, 1.27m […]

PMCID: 5869287
PMID: 29329394
DOI: 10.1093/gigascience/gix135

[…] and zika-infected samples was subjected to sispa multiplex library construction [] and sequenced by illumina nextseq 1 × 150-bp sequencing., all falcon [] assemblies were generated on the dnanexus (san francisco, ca, usa) platform using the dnanexus falcon 0.0.1 application, which combined falcon 0.4.2 with repmask and tanmask from damasker []. raw reads of 10 731 bases or longer […]

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