Figure 1
From: The first draft genome of Picrorhiza kurrooa, an endangered medicinal herb from Himalayas
(a) Schematic diagram of the strategy used to join contigs into scaffolds using unique stretches of contigs. Initially PacBio long reads (LR) were corrected using self correction as well as by hybrid correction. LRs from both the strategies were used in Canu assembler for primary assembly. Primary assembly was checked for novel and known repetitive content. These contents were used to mask the assembly and generate unique tags. On the basis of unique regions and repeat families, unique identification (UID) was generated for each region. On the basis of these, UID scaffolds were generated with the help of local similarity search tool (BLAST). Further, this assembly was improved with Illumina PE read mapping. (b) Workflow of annotation pipeline followed for all the major components of the genome including repeats, transcription factors, genes, miRNAs, transcription factor binding sites (TFBS), phylogenetic analysis, miRNA targeting information and non-coding RNA annotation etc.
