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Background

  • Workflow
  • Software components
  • Software Updates
  • Barcode Data Standard
  • Naming Conventions

FIMS

  • Populating the FIMS Spreadsheet
  • FIMS Validation and Upload

LIMS

  • Geneious Prime Introduction
  • Connecting with the Biocode Plugin
  • Generating Extraction Plates
  • Generating PCR Plates
  • Generating Cycle Sequencing Plates
  • Cherry Picking

Assembly and Quality Control

  • Downloading Traces from LIMS
  • Assembling Contigs
  • Quality Control of Assembled Contigs
  • Using the Batch Rename Function
  • Annotating with FIMS/LIMS Data
  • Reaction Status in LIMS
  • Exporting Sequences in FASTA format
  • Exporting Sequence Metadata in TSV format
  • Running NCBI BLAST to Compare Taxonomic IDs

Data Publication

  • GenBank Upload Pipeline 1: GenBank Submission Portal
  • GenBank Upload Pipeline 2: Geneious Prime GenBank Submission Tool
  • Annotating Sequences for GenBank Submission
  • Rapid Data Release Policy
  • Updating Existing GenBank Records
  • NCBI BioProjects
  • Tips for BOLD Upload
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