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Lightweight bioinformatics: evaluating the utility of Single Board Computer (SBC) clusters for portable, scalable Real-Time Bioinformatics in fieldwork environments via benchmarking

https://doi.org/10.1101/337212
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/s10586-013-0282-7openalex-snapshot
Iridis-pi: a low-cost, compact demonstration cluster
inferredcites →https://doi.org/10.1038/nature16996openalex-snapshot
Real-time, portable genome sequencing for Ebola surveillance
inferredcites →https://doi.org/10.1038/s41467-018-03016-2openalex-snapshot
High contiguity Arabidopsis thaliana genome assembly with a single nanopore flow cell
inferredcites →https://doi.org/10.1038/s41559-017-0347-8openalex-snapshot
Genome expansion and lineage-specific genetic innovations in the forest pathogenic fungi Armillaria
inferredcites →https://doi.org/10.1038/s41598-017-08461-5openalex-snapshot
Field-based species identification of closely-related plants using real-time nanopore sequencing
inferredcites →https://doi.org/10.1038/s41598-017-16920-2openalex-snapshot
Multilocus DNA barcoding – Species Identification with Multilocus Data
inferredcites →https://doi.org/10.1038/srep41926openalex-snapshot
Limb proportions show developmental plasticity in response to embryo movement
inferredcites →https://doi.org/10.1093/bioinformatics/btm071openalex-snapshot
CEGMA: a pipeline to accurately annotate core genes in eukaryotic genomes
inferredcites →https://doi.org/10.1093/bioinformatics/btu033openalex-snapshot
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
inferredcites →https://doi.org/10.1093/gigascience/giw015openalex-snapshot
Estimating the total number of phosphoproteins and phosphorylation sites in eukaryotic proteomes
inferredcites →https://doi.org/10.1093/gigascience/gix007openalex-snapshot
MinION™ nanopore sequencing of environmental metagenomes: a synthetic approach
inferredcites →https://doi.org/10.1093/nar/gkh340openalex-snapshot
MUSCLE: multiple sequence alignment with high accuracy and high throughput
inferredcites →https://doi.org/10.1098/rstb.2015.0335openalex-snapshot
Multilocus inference of species trees and DNA barcoding
inferredcites →https://doi.org/10.1101/030742openalex-snapshot
What’s in my pot? Real-time species identification on the MinION™
inferredcites →https://doi.org/10.1101/281048openalex-snapshot
Rapid, raw-read reference and identification (R4IDs): A flexible platform for rapid generic species ID using long-read sequencing technology
inferredcites →https://doi.org/10.1101/gr.191692.115openalex-snapshot
A vision for ubiquitous sequencing
inferredcites →https://doi.org/10.1109/cyconus.2016.7836622openalex-snapshot
Evaluating single board computer clusters for cyber operations
inferredcites →https://doi.org/10.1186/1471-2105-10-421openalex-snapshot
BLAST+: architecture and applications
inferredcites →https://doi.org/10.1186/1471-2105-14-243openalex-snapshot
4273π: Bioinformatics education on low cost ARM hardware
inferredcites →https://doi.org/10.1186/1471-2105-5-59openalex-snapshot
Gene finding in novel genomes
inferredcites →https://doi.org/10.1186/gb-2014-15-3-r46openalex-snapshot
Kraken: ultrafast metagenomic sequence classification using exact alignments
inferredcites →https://doi.org/10.7171/jbt.17-2801-009openalex-snapshot
Real-Time DNA Sequencing in the Antarctic Dry Valleys Using the Oxford Nanopore Sequencer

What points at this work

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inferred← citeshttps://doi.org/10.1007/978-3-030-77970-2_38openalex-snapshot
Metagenomic Analysis at the Edge with Jetson Xavier NX
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