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Greetings,
Has anyone have experience with "metaquast" for aligning assemblies each other? The original publication has detailed description on "quast" but not on "metaquast" as "metaquast" came out recently. I think that it performs in a similar way to BLAST. I have multiple viral metagenomic datasets. The average contig size of each metagenomic dataset is about 550 bp. After running metaquast, should I look at genome fraction (%) value for similarity between assembled metagenomic datasets? Any suggestion or advice would be appreciated.
Has anyone have experience with "metaquast" for aligning assemblies each other? The original publication has detailed description on "quast" but not on "metaquast" as "metaquast" came out recently. I think that it performs in a similar way to BLAST. I have multiple viral metagenomic datasets. The average contig size of each metagenomic dataset is about 550 bp. After running metaquast, should I look at genome fraction (%) value for similarity between assembled metagenomic datasets? Any suggestion or advice would be appreciated.