Repositories list

• p3_core

  Public
  Core library modules & scripts for PATRIC API integration

  Perl

  •6•0•0•0•Updated Jul 16, 2025Jul 16, 2025

• p3_cli

  Public
  BV-BRC command line interface scripts

  Perl

  •5•0•0•0•Updated Jul 16, 2025Jul 16, 2025

• brc.parent

  Public
  Master project for SEEDtk java modules used by BV-BRC

  Makefile

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• shared

  Public
  Shared SEED java library

  Java

  •0•1•0•0•Updated Jul 15, 2025Jul 15, 2025

• p3api

  Public
  Java library for PATRIC DATA API

  Java

  •0•0•0•1•Updated Jul 15, 2025Jul 15, 2025

• io.template

  Public
  Text generation utilities

  Java

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• genome.download

  Public
  Commands for converting genomes to GTOs

  Java

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• genome.changes

  Public
  COmmands for comparing feature characteristics in genome sets

  Java

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• dl4j.eval

  Public
  Deep learning system for annotation consistency

  Java

  •0•0•0•1•Updated Jul 15, 2025Jul 15, 2025

• dl4j.decision

  Public
  Small DL4J library for RandomForest only

  Java

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• bins.generate

  Public
  New Metagenome Binning Algorithm

  Java

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• basic

  Public
  Low-level shared SEED java library

  Java

  •0•1•0•0•Updated Jul 15, 2025Jul 15, 2025

• genome.survey

  Public
  General utilities for processing genomes

  Java

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• core

  Public
  CoreSEED Java Library

  Java

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• ncbi.utils

  Public
  Java Utilities for accessing NCBI

  Java

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• cli.utils

  Public
  Applications that use PATRIC command-line utilities

  Java

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• kmers.hammer

  Public
  Utilities for processing thor-hammers

  Java

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• java.erdb

  Public
  ERDB Support for Java

  Java

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• java.config

  Public
  Java commands for project update and configuration

  Java

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• kmers.reps

  Public
  Java module for representative genomes

  Java

  •0•0•0•1•Updated Jul 15, 2025Jul 15, 2025

• kernel

  Public
  Perl

  •1•0•0•0•Updated Jul 13, 2025Jul 13, 2025

• seedtk

  Public
  Configuration module. See http://bioseed.mcs.anl.gov/~parrello/SEEDtk/Doc.cgi?module=ReadMe for instructions.

  Perl

  •

  MIT License

  •8•0•0•0•Updated Jul 10, 2025Jul 10, 2025

• dl4j.utils

  Public
  Utility classes related to the dl4j family of products

  Java

  •0•0•0•0•Updated Jul 10, 2025Jul 10, 2025

• aurora.python

  Public
  Utility scripts for the Aurora project.

  Python

  •0•0•0•0•Updated Jul 9, 2025Jul 9, 2025

• sequence

  Public
  Sequence-hashing utilities

  Java

  •0•0•0•0•Updated Jul 8, 2025Jul 8, 2025

• excel.utils

  Public
  Java utilities for reading and writing excel spreadsheets

  Java

  •0•0•0•0•Updated Jul 8, 2025Jul 8, 2025

• distance

  Public
  Genome distance-measuring methods

  Java

  •0•0•0•0•Updated Jul 8, 2025Jul 8, 2025

• p3_code

  Public
  SEEDtk Fragment Shared with PATRIC

  Perl

  •3•0•0•0•Updated Jun 4, 2025Jun 4, 2025

• erdb.utils

  Public
  Java ERDB Utilities

  HTML

  •0•0•0•0•Updated May 19, 2025May 19, 2025

• kmers.anno

  Public
  Kmer-based annotation engine

  Java

  •0•0•0•1•Updated Apr 17, 2025Apr 17, 2025