Skip to content

@BGAcademy23 Biodiversity Genomics Academy 2023

Change the repository type filter

All

    Repositories list

    30 repositories

    • treeval-curation

      Public
      Biodiversity Genomics Academy 2023: The Treeval pipeline: Generating evidence for manual curation
      MIT License
      •4•0•0•0•Updated Aug 12, 2024Aug 12, 2024

    • ensembl-annotation

      Public
      Biodiversity Genomics Academy 2023: Annotating genomes the Ensembl way - General concepts + Case study
      MIT License
      •4•6•0•0•Updated Mar 18, 2024Mar 18, 2024

    • BGAcademy23.github.io

      Public
      MIT License
      •0•0•0•0•Updated Sep 30, 2023Sep 30, 2023

    • cactus

      Public
      Biodiversity Genomics Academy 2023: Aligning whole genomes using Cactus
      MIT License
      •1•2•0•0•Updated Sep 29, 2023Sep 29, 2023

    • merqury

      Public
      Biodiversity Genomics Academy 2023: Assess genome assemblies with Merqury
      MIT License
      •0•2•0•0•Updated Sep 26, 2023Sep 26, 2023

    • busco

      Public
      Biodiversity Genomics Academy 2023: BUSCO - from QC to gene prediction and phylogenomics
      MIT License
      •1•1•0•0•Updated Sep 26, 2023Sep 26, 2023

    • goat

      Public
      Biodiversity Genomics Academy 2023: Querying genome metadata and sequencing projects using GoaT
      MIT License
      •1•0•0•0•Updated Sep 25, 2023Sep 25, 2023

    • pangenome

      Public
      Biodiversity Genomics Academy 2023: Pangenome Assembly and Assessment using Minigraph and Bandage
      MIT License
      •0•0•0•0•Updated Sep 22, 2023Sep 22, 2023

    • gfastar

      Public
      Biodiversity Genomics Academy 2023: Gfastar: a tool suite to assist genome assembly
      MIT License
      •2•1•0•0•Updated Sep 22, 2023Sep 22, 2023

    • hifiasm-telomere

      Public
      Biodiversity Genomics Academy 2023: Scalable telomere-to-telomere assembly with hifiasm
      MIT License
      •0•1•0•0•Updated Sep 22, 2023Sep 22, 2023

    • B3

      Public
      Biodiversity Genomics Academy 2023: Gene prediction with BRAKER3
      AMPL
      •
      MIT License
      •6•10•0•0•Updated Sep 22, 2023Sep 22, 2023

    • vgpgalaxy

      Public
      Biodiversity Genomics Academy 2023: Assembling Genomes with the VGP-Galaxy Pipeline
      MIT License
      •1•0•0•0•Updated Sep 21, 2023Sep 21, 2023

    • oma-omark

      Public
      Biodiversity Genomics Academy 2023: OMA and OMArk for homology exploration and gene annotation quality control
      MIT License
      •1•0•0•0•Updated Sep 20, 2023Sep 20, 2023

    • nextflow-genomics

      Public
      Biodiversity Genomics Academy 2023: Introduction to NextFlow for genomics
      Nextflow
      •
      MIT License
      •0•0•0•0•Updated Sep 20, 2023Sep 20, 2023

    • manual-curation

      Public
      Biodiversity Genomics Academy 2023: Introduction to Manual Curation - HiC and JBrowse
      MIT License
      •7•3•0•0•Updated Sep 19, 2023Sep 19, 2023

    • genomescope

      Public
      Biodiversity Genomics Academy 2023: Genome profiling using GenomeScope
      MIT License
      •3•3•0•0•Updated Sep 15, 2023Sep 15, 2023

    • ncbidatasets

      Public
      Biodiversity Genomics Academy 2023: Searching and Downloading Genome Data using NCBI Datasets
      MIT License
      •0•1•0•0•Updated Sep 14, 2023Sep 14, 2023

    • MitoHiFi

      Public
      Biodiversity Genomics Academy 2023: Assembling Mitogenomes from PacBio HiFi reads using MitoHiFi
      MIT License
      •0•0•0•0•Updated Sep 14, 2023Sep 14, 2023

    • ncbi-cgv

      Public
      Biodiversity Genomics Academy 2023: Compare whole genome assembly alignments using NCBI’s Comparative Genome Viewer (CGV)
      MIT License
      •0•0•0•0•Updated Sep 14, 2023Sep 14, 2023

    • cngbdb

      Public
      Biodiversity Genomics Academy 2023: Starting a comparative genome study from CNGBdb: datasets, analysis platform, and spatial transcriptomics database
      MIT License
      •1•0•0•0•Updated Sep 13, 2023Sep 13, 2023

    • smudgeplot

      Public
      Biodiversity Genomics Academy 2023: Understanding k-mers and ploidy using Smudgeplot
      MIT License
      •5•10•0•0•Updated Sep 12, 2023Sep 12, 2023

    • btk-cli

      Public
      Biodiversity Genomics Academy 2023: Visualising genome assembly cobionts by running BlobToolKit locally
      MIT License
      •0•0•0•0•Updated Sep 11, 2023Sep 11, 2023

    • btk-view

      Public
      Biodiversity Genomics Academy 2023: Checking for cobionts in public genomes using BlobToolKit
      MIT License
      •0•0•0•0•Updated Sep 11, 2023Sep 11, 2023

    • earlgrey-te

      Public
      Biodiversity Genomics Academy 2023: Classifying Transposable Elements with Earl Grey TE
      MIT License
      •0•1•0•0•Updated Sep 6, 2023Sep 6, 2023

    • enaebi-data

      Public
      Biodiversity Genomics Academy 2023: ENA data retrieval and EMBL-EBI's Biodiversity Portals
      MIT License
      •0•0•0•0•Updated Aug 30, 2023Aug 30, 2023

    • test

      Public
      MIT License
      •0•0•2•0•Updated Aug 25, 2023Aug 25, 2023

    • ena-ebi-stands

      Public
      Biodiversity Genomics Academy 2023: ENA Standards and Submission
      MIT License
      •2•0•0•0•Updated Aug 21, 2023Aug 21, 2023

    • easel-annotation

      Public
      Biodiversity Genomics Academy 2023: EASEL: software for eukaryotic structural and functional genome annotation
      MIT License
      •0•0•0•0•Updated Aug 18, 2023Aug 18, 2023

    • template

      Public template
      BGA23 session template
      MIT License
      •0•0•0•0•Updated Aug 18, 2023Aug 18, 2023

    • mitohifi-old

      Public
      MitoHifi at Biodiversity Genomics Academy 2023
      MIT License
      •0•0•0•0•Updated Jul 21, 2023Jul 21, 2023