(Q64075184)

English

GPU accelerated sequence alignment with traceback for GATK HaplotypeCaller

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title

GPU accelerated sequence alignment with traceback for GATK HaplotypeCaller (English)

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1 reference

Shanshan Ren

1

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Nauman Ahmed

series ordinal

2

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Koen Bertels

series ordinal

3

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Zaid Al-Ars

series ordinal

4

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publication date

4 April 2019

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language of work or name

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20

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issue

Suppl 2

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page(s)

184

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copyright license

Creative Commons Attribution 4.0 International

start time

1 April 2019

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April 2022 Public Data File from Crossref

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copyrighted

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cites work

Optimal alignments in linear space

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30967111

retrieved

12 December 2020

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inferred from PubMed ID database lookup

160-fold acceleration of the Smith-Waterman algorithm using a field programmable gate array (FPGA).

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30967111

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

CUDASW++: optimizing Smith-Waterman sequence database searches for CUDA-enabled graphics processing units

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30967111

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The Sequence Alignment/Map format and SAMtools

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30967111

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

CUDASW++2.0: enhanced Smith-Waterman protein database search on CUDA-enabled GPUs based on SIMT and virtualized SIMD abstractions

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30967111

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Protein alignment algorithms with an efficient backtracking routine on multiple GPUs

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30967111

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

DOPA: GPU-based protein alignment using database and memory access optimizations

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30967111

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

SW#-GPU-enabled exact alignments on genome scale

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30967111

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Efficient Acceleration of the Pair-HMMs Forward Algorithm for GATK HaplotypeCaller on Graphics Processing Units

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30967111

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

DOI

10.1186/S12864-019-5468-9

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Dimensions publication ID

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9 September 2019

https://scigraph.springernature.com/pub.10.1186/s12864-019-5468-9

PMC publication ID

6456962

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PubMed publication ID

30967111

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(Q64075184)

GPU accelerated sequence alignment with traceback for GATK HaplotypeCaller

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