READSCAN: a fast and scalable pathogen discovery program with accurate genome relative abundance estimation

READSCAN: a fast and scalable pathogen discovery program with accurate genome relative abundance estimation

Summary: READSCAN is a highly scalable parallel program to identify non-host sequences (of potential pathogen origin) and estimate their genome relative abundance in high-throughput sequence datasets. READSCAN accurately classified human and viral sequences on a 20.1 million reads simulated dataset...

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Bibliographic Details
Main Authors: Naeem, Raeece, Rashid, Mamoon, Pain, Arnab
Format: Online
Language:English
Published: Oxford University Press 2013
Online Access:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3562070/
id pubmed-3562070
recordtype oai_dc
spelling pubmed-35620702013-02-01 READSCAN: a fast and scalable pathogen discovery program with accurate genome relative abundance estimation Naeem, Raeece Rashid, Mamoon Pain, Arnab Applications Notes Summary: READSCAN is a highly scalable parallel program to identify non-host sequences (of potential pathogen origin) and estimate their genome relative abundance in high-throughput sequence datasets. READSCAN accurately classified human and viral sequences on a 20.1 million reads simulated dataset in <27 min using a small Beowulf compute cluster with 16 nodes (Supplementary Material). Oxford University Press 2013-02-01 2012-11-28 /pmc/articles/PMC3562070/ /pubmed/23193222 http://dx.doi.org/10.1093/bioinformatics/bts684 Text en © The Author(s) 2012. Published by Oxford University Press. http://creativecommons.org/licenses/by/3.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
repository_type Open Access Journal
institution_category Foreign Institution
institution US National Center for Biotechnology Information
building NCBI PubMed
collection Online Access
language English
format Online
author Naeem, Raeece
Rashid, Mamoon
Pain, Arnab
spellingShingle Naeem, Raeece
Rashid, Mamoon
Pain, Arnab
READSCAN: a fast and scalable pathogen discovery program with accurate genome relative abundance estimation
author_facet Naeem, Raeece
Rashid, Mamoon
Pain, Arnab
author_sort Naeem, Raeece
title READSCAN: a fast and scalable pathogen discovery program with accurate genome relative abundance estimation
title_short READSCAN: a fast and scalable pathogen discovery program with accurate genome relative abundance estimation
title_full READSCAN: a fast and scalable pathogen discovery program with accurate genome relative abundance estimation
title_fullStr READSCAN: a fast and scalable pathogen discovery program with accurate genome relative abundance estimation
title_full_unstemmed READSCAN: a fast and scalable pathogen discovery program with accurate genome relative abundance estimation
title_sort readscan: a fast and scalable pathogen discovery program with accurate genome relative abundance estimation
description Summary: READSCAN is a highly scalable parallel program to identify non-host sequences (of potential pathogen origin) and estimate their genome relative abundance in high-throughput sequence datasets. READSCAN accurately classified human and viral sequences on a 20.1 million reads simulated dataset in <27 min using a small Beowulf compute cluster with 16 nodes (Supplementary Material).
publisher Oxford University Press
publishDate 2013
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3562070/
_version_ 1611951965072261120

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