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@rdpstaff

RDP Staff

Ribosomal Database Project at MSU

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  1. classifier classifier Public

    RDP extensible sequence classifier for fungal lsu, bacterial and archaeal 16s

    Java 55 32

  2. RDPTools RDPTools Public

    Collection of commonly used RDP Tools for easy building

    Makefile 49 52

  3. fungene_pipeline fungene_pipeline Public

    Scripts and resources for analyzing sequence data for select eco-functional genes

    Python 19 11

  4. Xander_assembler Xander_assembler Public

    A gene-targeted assembler tool

    Shell 19 4

  5. Framebot Framebot Public

    Dynamic programming based frame shift detection and correction tool with nearest neighbor classification.

    Java 7 7

  6. EcoFunPrimer EcoFunPrimer Public

    primer design pipeline

    Java 7 4

Repositories

Showing 10 of 20 repositories
  • RDPTools Public

    Collection of commonly used RDP Tools for easy building

    rdpstaff/RDPTools’s past year of commit activity
    Makefile 49 52 23 0 Updated Jun 8, 2023
  • classifier Public

    RDP extensible sequence classifier for fungal lsu, bacterial and archaeal 16s

    rdpstaff/classifier’s past year of commit activity
    Java 55 GPL-2.0 32 22 1 Updated Dec 21, 2022
  • gfclassify Public

    Gene Family Classifier allows for fast and accurate classification of amplicon (or open reading frame) nucleotide sequences.

    rdpstaff/gfclassify’s past year of commit activity
    Python 2 GPL-3.0 0 0 0 Updated Jul 29, 2022
  • Xander-HMMgs Public
    rdpstaff/Xander-HMMgs’s past year of commit activity
    Java 0 GPL-3.0 2 0 0 Updated Dec 29, 2020
  • TaxonomyTree Public

    TaxonomyTree building and traversal utility classes.

    rdpstaff/TaxonomyTree’s past year of commit activity
    Java 3 GPL-3.0 2 0 0 Updated Dec 29, 2020
  • SequenceMatch Public

    K-mer based sequence matching tool

    rdpstaff/SequenceMatch’s past year of commit activity
    Java 1 GPL-3.0 2 0 1 Updated Dec 29, 2020
  • SeqFilters Public

    Java filtering framework for sequence data

    rdpstaff/SeqFilters’s past year of commit activity
    Java 0 GPL-3.0 2 0 0 Updated Dec 29, 2020
  • ReadSeq Public

    Java based common sequence file format reader and sequence file manipulation. Most RDP projects require this package.

    rdpstaff/ReadSeq’s past year of commit activity
    Java 1 GPL-3.0 6 1 0 Updated Dec 29, 2020
  • ProbeMatch Public

    Tools for finding (and removing) DNA/RNA primers in sequence reads.

    rdpstaff/ProbeMatch’s past year of commit activity
    Java 1 GPL-3.0 2 0 0 Updated Dec 29, 2020
  • KmerFilter Public

    Tools for kmer analysis.

    rdpstaff/KmerFilter’s past year of commit activity
    Java 0 GPL-3.0 1 1 0 Updated Dec 29, 2020
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