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Unfortunately, most of the problems and evolving questions raised above can't be solved and answered entirely. suboptimal library preparation, but also serious incidents, including sample contamination or even mix-up, ultimately threatening the accuracy of biological conclusions. Biologists and sequencing facility technicians face not only issues of minor relevance, e.g. Combined with the fact that we for the last couple of years have seen a significant increase in the number of researchers involved in next generation sequencing projects creates a need for de novo assemblers for handling extremely large amounts of data and solve the complex task of constructing de novo assemblies from short read data (Chinnappa and McCurdy, 2015).
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Introduction Sequencing technologies are in continuous development with new technologies emerging, improvements in the sequencing quality and rapidly increasing amounts of sequencing data. The values for N50 and average contig length recorded 1,016(DT), 1,118 (DRT), 1,015 (ST) and 680(DT), 725(DRT), 685(ST) respectively They have been analysed for quality check with the Per-sequence analysis, Per-base and Over-representation analysis using CLC workbench which includes different categories resulting in good quality of data. The De novo assembly resulted with 50849 (DT), 44550 (DRT) and 46254 (ST) contigs. of 38,714,870 paired sequences of DT (ID: SRR1039535), 38,669,102 paired sequences of DRT (ID: SRR1103933) and 38,753,150 paired sequences of ST (ID: SRR1103934) were downloaded from SRA database in FastQ format. Dormant tuber (DT), Dormancy release tuber (DRT) and Sprouting tuber (ST) were studied for computational quality analysis. In the present study, transcriptome data of three different physiological stages of potato tubers i.e.
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It is designed to accept a combination of data from Illumina, 454, SOLiD, Ion Torrent and Sanger sequencing as a mix of paired and unpaired reads which allows the quality analysis of SRA data from different sequencing technologies, to be exploited. The CLC de novo assembler is a support system for large data sets and integrated scaffolding for joining contigs based on paired reads information.