Table 5 Metagenome statistics
From: Functional and taxonomic classification of a greenhouse water drain metagenome
Label | Metagenome Label | Comment |
|---|---|---|
Libraries used | Drain-A and Drain-B | We performed the assembly using all the reads of the two libraries that passed quality filters. |
Assembly tool(s) used | IDBA-UD and MetaSpades and merged with nucmer | 20–125 of k-mer length (IDBA-UD) 21–121 (MetaSpades) |
Number of contigs after assembly | 7003 | These numbers correspond to the best assembly merged using nucmer. |
Number of singletons after assembly | N/A | MetaSpades and IDBA-UD were used in pre-correction mode to discard singletons k-mers. |
Total bases assembled | 859,091,400 | Total base pairs in the assembly. |
Contig n50 | 4246 | |
% of Sequences assembled | 97% | The fraction of the input data in the assembly. |
Measure for % assembled | 79% | The method used for calculating % assembled was determinate by read mapping using BWA (default parameters) against final assembly and considering the total reads (7,208,266 reads) |