Methods to build reference genomes for species where one is not available. A typical setup involves an initial draft genome assembled from long sequence reads, followed by scaffolding to get longer contigs and error-correction. This is followed by annotation of the new reference genome, eg. of genes and other functional elements.
PacBio SMRT sequencing generates reads tens of kilobases in length enabling high quality genome assembly, structural variant analysis, amplicon resequencing, full-length transcript isoform sequencing, full-length 16S rRNA sequencing and amplification free epigenetic characterization.assembly methylation smrt pacbio amplicon sequel hifi clr de novo iso seq sv
NeutronStar is a bioinformatics best-practice analysis pipeline used for de novo assembly and quality-control of 10x Genomics Chromium data. The pipeline is built using Nextflow, and comes with docker / singularity containers to make the results highly reproducible.neutronstar de novo