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@calacademy-research

California Academy of Sciences, Institute for Biodiversity Science & Sustainability

Public repositories for IBSS projects

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  1. minibar minibar Public

    Dual barcode and primer demultiplexing for MinION sequenced reads

    Python 42 7

  2. antcat antcat Public

    World Catalog of Ants

    Ruby 22 9

  3. antweb antweb Public

    AntWeb is the world's largest online database of images, specimen records, and natural history information on ants. It is community driven and open to contribution from anyone with specimen records…

    Java 9 5

  4. RAxML_Astral_trees RAxML_Astral_trees Public

    This project generates Astral-III species trees from gene trees generated from RAxML using UCE data generated by the Phyluce pipeline. Then runs an Astral III analysis.

    Shell 8 2

  5. BLATq BLATq Public

    blatq is a modified version of BLAT—The BLAST-Like Alignment Tool to allow direct use of fastq files

    C 5 1

  6. COMB COMB Public

    C O M B

    R 5 6

Repositories

Showing 10 of 67 repositories
  • antweb Public

    AntWeb is the world's largest online database of images, specimen records, and natural history information on ants. It is community driven and open to contribution from anyone with specimen records, natural history comments, or images.

    calacademy-research/antweb's past year of commit activity
    Java 9 5 0 4 Updated Oct 25, 2026
  • antcat Public

    World Catalog of Ants

    calacademy-research/antcat's past year of commit activity
    Ruby 22 9 0 0 Updated Oct 23, 2026
  • LabelLlama_CAS Public Forked from rafelafrance/LabelLlama

    Extract information from labels on images of museum specimens. Custom modifications for the California Academy of Sciences..

    calacademy-research/LabelLlama_CAS's past year of commit activity
    Python 1 MIT 1 0 0 Updated Oct 23, 2026
  • web-asset-importer Public

    Image client used in conjunction with web-asset-server to process images/data into image server, and specify databases.

    calacademy-research/web-asset-importer's past year of commit activity
    Python 1 2 1 4 Updated Oct 23, 2026
  • cas_bot_georeference Public

    The python GeoReferencer which defines a BELS --> Geolocate --> GVS pipeline to assign lat/long coordinates + error radii.

    calacademy-research/cas_bot_georeference's past year of commit activity
    Python 1 0 0 0 Updated Oct 21, 2026
  • expedition-clustering Public

    Expedition Clustering groups California Academy of Sciences botany specimens into inferred expeditions using a reproducible spatiotemporal DBSCAN pipeline.

    calacademy-research/expedition-clustering's past year of commit activity
    Jupyter Notebook 0 1 0 0 Updated Oct 19, 2026
  • COMB Public

    C O M B

    calacademy-research/COMB's past year of commit activity
    R 5 Apache-2.0 6 18 1 Updated Oct 17, 2026
  • cas_grouper Public Forked from BRITorg/Grouper

    A forked version of grouper from BRITorg. Reduces unique localities via fuzzy matching and normalization.

    calacademy-research/cas_grouper's past year of commit activity
    Python 0 GPL-3.0 2 0 0 Updated Oct 17, 2026
  • picturae_csv_parser Public

    stand alone program , used to QC csvs ready for specify import from picturae, nfn and digileap supplied data

    calacademy-research/picturae_csv_parser's past year of commit activity
    Python 2 0 0 0 Updated Oct 15, 2026
  • collections-tools Public

    Collection management tools for CAS

    calacademy-research/collections-tools's past year of commit activity
    Python 0 0 0 0 Updated Oct 12, 2026
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