molecular

fastv is an ultra-fast tool for identification of SARS-CoV-2 and other microbes from sequencing data. It detects microbial sequences from FASTQ data, generates JSON reports and visualizes the result in HTML reports. This tool can be used to detect viral infectious diseases, like COVID-19. This tool supports both short reads (Illumina, BGI, etc.) and long reads (ONT, PacBio, etc.).

non-collection specific

(Simple) Released

TAR.GZ

English

MIT License

Shifu Chen

Changshou He

Yingqiang Li

Zhicheng Li

Charles E Melancon III

fastv: A Computational Toolset for Rapid Identification of SARS-CoV-2, other Viruses, and Microorganisms from Sequencing Data

sequence collection

An organism of a particular biological taxon that is the bearer of an infectious dispositions towards an organism of a different particular biological taxon.

pathogen

Severe acute respiratory syndrome coronavirus 2

An organism of a particular biological taxon that is the site of reproduction of an organism of a different taxon.

host organism

Homo sapiens

A disease is a disposition (i) to undergo pathological processes that (ii) exists in an organism because of one or more disorders in that organism.

disease

A disease whose physical basis is an infectious disorder.

infectious disease

A Coronavirus infection that is characterized by fever, cough and shortness of breath and that has_material_basis_in SARS-CoV-2.

COVID-19

Software is a plan specification composed of a series of instructions that can be interpreted by or directly executed by a processing unit.

Identifier	URL:https://github.com/OpenGene/fastv
Type	software
Biological Scale	molecular
Collection End Date
Language	English
Topics	disease infectious disease COVID-19 host organism Homo sapiens pathogen Severe acute respiratory syndrome coronavirus 2 sequence collection
Geographical Scope
Geographical Resolution
Start Date
End Date
Version	0.8.1
Accessible For Free	TRUE
License	MIT License
Rights	unspecified
HTTP Status Code	200
HTTP Checked On	2025/06/16