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URL: https://gatk.broadinstitute.org/hc/en-us/articles/360042913231-HaplotypeCaller
Proper Citation: GATK HaplotypeCaller (RRID:SCR_028440)
Description: Software tool for identifying single nucleotide polymorphisms (SNPs) and insertion/deletion (indels) variants, offering high accuracy via local de-novo assembly of reads. It works by identifying "active regions" with potential variation, reassembling those reads, and calculating genotype likelihoods, making it superior for complex variant detection.
Resource Type: software application, software resource
Defining Citation: DOI:10.1101/201178
Keywords: identifying single nucleotide polymorphisms, insertion, deletion, indels, variants, local de-novo assembly of reads,
Availability: Free, Freely available
Resource Name: GATK HaplotypeCaller
Resource ID: SCR_028440
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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
The data sets included in this resource are published in Kravitz et al, 2012. Distinct roles for direct and indirect pathway striatal neurons in reinforcement (Nat. Neurosci).
