SMRT-Analysis pipeline

SMRT-Analysis specifications

Information


Unique identifier OMICS_05142
Name SMRT-Analysis
Alternative names smrtanalysis, SMRT Analysis, SMRT
Software type Toolkit/Suite
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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SMRT-Analysis citations

 (5)
2017
PMCID: 5571427

[…] llumina), following construction of a 2-kb nextera xt library. the generated long-read sequences (1,842,560,472 nucleotides; 116,681 reads) were de novo assembled using the single-molecule real-time (smrt) analysis software version 2.3.0 followed by circlator version 1.4.1 for circularization (7). the assembly quality was checked using 250-base paired-end short-read sequences (595,503,983 nucleoti […]

2017
PMCID: 5525351

[…] and edited using figtree v.1.4.3 [14].fig. 2 , nla y92–1009 gmp stocks were generated in 2011 [4]. chromosomal dna was extracted at the university of southampton and sent to tgac, norwich for smrt cell sequencing (pacbio rs ii) and the wellcome trust genomics centre, oxford for short read sequencing using hiseq 2000. the genome was assembled using the internal pipeline at tgac. […]

2015
PMCID: 5064606

[…] technology produced long reads, but with 15.4–17.9% randomly distributed indel errors 35, 36. most error correction strategies have used tngs technologies to produce high‐accuracy reads to correct smrt long reads 19. however, optimized traditional sequence alignment strategies are generally used to detect substitution errors. the interference of indel errors created inconsistencies […]

2014
PMCID: 4286346

[…] which was partly supported by the guangdong province universities and colleges pearl river scholar funded scheme (2009) (xiaoguang chen, personal communication)., single molecule real time (smrt) sequencing (pacific biosciences) of barcoded pcr amplicons was used to genotype 34 females from each parent colony and 100 - 102 females from each f2 hybrid pool. dna was extracted from bodies […]

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