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URL: https://bitbucket.org/dries_decap/halvadeforspark/
Proper Citation: Halvade Somatic (RRID:SCR_021771)
Description: Software implements germline and somatic variant calling pipelines based on best practices pipelines from Broad Institute using Spark framework. Produces VCF output file which contains single nucleotide polymorphisms (SNPs) and short insertions and deletions (indels) when supported by used tools. Program requires Spark on either local cluster with one or more nodes, Amazon EMR cluster or Docker image to run.
Synonyms: Halvade for Spark
Resource Type: software resource
Keywords: somatic variant, GATK, Halvade, VCF output file, germline, somatic variant calling, Spark framework
Availability: Free, Available for download, Freely available
Resource Name: Halvade Somatic
Resource ID: SCR_021771
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Source: SciCrunch Registry (RRID:SCR_005400)
Description: Interactive portal for finding and submitting biomedical resources. Resources within SciCrunch have assigned RRIDs which are used to cite resources in scientific manuscripts. SciCrunch Registry, formerly NIF Registry, provides resources catalog. Allows to add new resources. Allows edit existing resources after registration. Curators are tasked with identifying and registering resources, examining data, writing configuration files to index and display data and keeping contents current.
URL: https://rrid.site/rin/sources/SCR_005400
