Raptor
Raptor is a software tool that facilitates the approximate searching of a vast array of queries, such as next-generation sequencing reads or transcripts, within extensive collections of nucleotide sequences. The core technology behind Raptor leverages winnowing minimizers, a technique that allows the system to identify and utilize a set of representative signatures from the nucleotide sequences. This approach enables efficient and scalable search capabilities across large genomic datasets, making Raptor particularly suitable for bioinformatics applications where rapid and accurate analysis of genetic information is crucial. By optimizing the process of matching sequencing reads or transcripts to a comprehensive database of nucleotide sequences, Raptor enhances the ability of researchers to conduct genetic analyses, understand genetic variations, and advance the study of genomics.
Topic
Sequencing;Mapping;Gene expression;Computer science;Bioinformatics
Detail
Operation: Query and retrieval;Genome indexing;Read binning;k-mer counting
Software interface: Command-line interface
Language: C++
License: The 3-Clause BSD License
Cost: Free with restrictions
Version name: -
Credit: Max Planck Institute for Molecular Genetics, Berlin.
Input: -
Output: -
Contact: knut.reinert@fu-berlin.de
Collection: -
Maturity: -
Publications
- Raptor: A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.
- Seiler E, et al. Raptor: A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences. Raptor: A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences. 2021; 24:102782. doi: 10.1016/j.isci.2021.102782
- https://doi.org/10.1016/J.ISCI.2021.102782
- PMID: 34337360
- PMC: PMC8313605
Download and documentation
Source: https://github.com/seqan/raptor/releases/tag/raptor-v2.0.0
Documentation: https://github.com/seqan/seqan3/wiki/Update-Notifications
Home page: https://github.com/seqan/raptor
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