9 research outputs found
N50 and total length of the assemblies produced by AByss with different kmers.
<p>A) N50, B) contig length.</p
Assemblies compared in a pair-wise fashion using Mummer, and the proportions covered from each of the assemblies are shown below.
<p>The upper triangular values for each accession represent the proportion of sequences at the left that were present in the sequences at the top of the triangle. The lower triangular values represent the proportion of sequences in the accession at the top that were present in the accession at the left.</p><p>Assemblies compared in a pair-wise fashion using Mummer, and the proportions covered from each of the assemblies are shown below.</p
Statistics on <i>de novo</i> assemblies generated at kmer = 25 using Trinity, AByss and SOAPdenovo-Trans.
<p>Statistics on <i>de novo</i> assemblies generated at kmer = 25 using Trinity, AByss and SOAPdenovo-Trans.</p
Statistics on assemblies generated after merging multiple <i>kmer</i> assemblies using Trans-<i>AByss</i> and the non-redundant assemblies from Trinity and <i>AByss</i> [dedup – no redundant sequences, Mmer – multiple merged <i>kmer</i> assemblies].
<p>Statistics on assemblies generated after merging multiple <i>kmer</i> assemblies using Trans-<i>AByss</i> and the non-redundant assemblies from Trinity and <i>AByss</i> [dedup – no redundant sequences, Mmer – multiple merged <i>kmer</i> assemblies].</p
Distribution of contigs with varying percent identity against the legume protein database.
<p>BLASTX searches were performed with the threshold value of 1×10<sup>−6</sup>. A) 38901, B) 30076, C) Olin.</p
Distribution of contigs with varying percent identity against the legume EST database.
<p>BLASTN searches were performed with the threshold value of 1×10<sup>−10</sup>. A) 38901, B) 30076, C) Olin.</p
Statistics on the BLASTX, BLASTN and re-mapping of the raw reads to assemblies respectively.
<p>Statistics on the BLASTX, BLASTN and re-mapping of the raw reads to assemblies respectively.</p
Statistics on filtered FASTQ files using Fastx toolkit.
<p>Statistics on filtered FASTQ files using Fastx toolkit.</p
Contig length distribution generated from Trinity, AByss and SOAP at 25 kmer.
<p>Contigs greater than 200 bp were selected. A) 38901, B) 30076 and C) Olin.</p