firehose_get protocols

firehose_get specifications

Information


Unique identifier OMICS_19000
Name firehose_get
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Computer skills Advanced
Version 0.4.8
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Michael Noble <>

firehose_get IN pipelines

 (2)
2018
PMCID: 5766238
PMID: 29293496
DOI: 10.1371/journal.pcbi.1005921

[…] snpdensity(r)=∑i#(snpiinri)∑ilength(ri), illumina infinium human dna methylation 450 level 3 data were downloaded from the broad tcga gdac (http://gdac.broadinstitute.org) using firehose_get. the coordinates of the methylation sites (hg18) were converted into hg38 using the ucsc liftover and further intersected with that of the core promoters (hg38). for each gene, […]

2016
PMCID: 4917969
PMID: 27328849
DOI: 10.1038/ncomms12008

[…] and the genome analysis toolkit respectively50. snps were called using the unified genotyper method of the genome analysis toolkit and annotated using annovar51., tcga data were downloaded using firehose_get provided by the broad institute. scna data generated by the broad institute on the affymetrix genome-wide human snp array 6.0 from the 2015_02_04 run were used. we used copy-number […]

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