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It converts Roche 454.sff files to fasta format, strips out all read identifiers, performs the assembly, and returns only a fasta file with contigs.
All functional aspects of the pipeline shown in Figure 1 are performed by a wrapper script which sequentially performs the assembly and analysis of sequence data before storing it remotely and terminating the instance to minimize computing cost which is calculated in hourly blocks based on instance type.
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The Sector Sub-assembly Tool is one of the most important tools to perform the assembly of ITER.
The Newbler Assembler software version 2.5.3 was used to perform the assembly procedures, with a "-rip" flag that allows for the output of each read in a contig.
ALH performed the assembly of reads.
JHW and JDH performed the assembly.
SR performed the assembly of the deep sequencing reads.
Having performed the assembly, assessing its characteristics was not straightforward.
The trace file was used with the Phred-Phrap-Consed package to perform the assembly [ 79].
TH performed the assembly, annotation, classification of the data, and the digital gene expression analysis.
Newbler Assembler version 2.8 and WGS-CA 7.0 software were used to perform the assembly procedures.
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