FLASH protocols

FLASH specifications


Unique identifier OMICS_01047
Alternative name Fast Length Adjustment of SHort reads
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C
Computer skills Advanced
Stability Stable
Maintained Yes



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Publication for Fast Length Adjustment of SHort reads

FLASH IN pipelines

PMCID: 5824556
PMID: 29471872
DOI: 10.1186/s40168-018-0424-5

[…] 500 cycles as per the manufacturers’ instructions., raw reads were quality-filtered, trimmed and screened using prinseq-lite v0.20.4 [29] in combination with in-house scripts. we used flash v1.2.11 (fast length adjustment of short reads) to align high-quality paired-end reads [30]. sequences were de novo assembled using metaspades v3.9.0 [31], as recommended [32]. the quality of each assembled […]

PMCID: 5122959
PMID: 27876802
DOI: 10.1038/ncomms13419

[…] read merging. to note, this trimming step reduced the total number of singletons/doubletons in the final rarefied otu table by 5% (data not shown). the trimmed paired-end sequences were merged using fast length adjustment of short reads46. more than 95% of the reads were successfully merged, while the sequences that failed to merge were discarded. the merged reads were then quality filtered […]

FLASH institution(s)
McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD, USA

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