Repositories list

• brc.parent

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

  Makefile

  •0•0•0•0•Updated Oct 29, 2024Oct 29, 2024

• basic

  Public
  Low-level shared SEED java library

  Java

  •0•1•0•0•Updated Oct 29, 2024Oct 29, 2024

• kernel

  Public
  Perl

  •1•0•0•0•Updated Oct 28, 2024Oct 28, 2024

• genome.survey

  Public
  General utilities for processing genomes

  Java

  •0•0•0•0•Updated Oct 27, 2024Oct 27, 2024

• io.template

  Public
  Text generation utilities

  Java

  •0•0•0•0•Updated Oct 27, 2024Oct 27, 2024

• aurora.python

  Public
  Utility scripts for the Aurora project.

  Python

  •0•0•0•0•Updated Oct 21, 2024Oct 21, 2024

• p3api

  Public
  Java library for PATRIC DATA API

  Java

  •0•0•0•1•Updated Oct 15, 2024Oct 15, 2024

• genome.download

  Public
  Commands for converting genomes to GTOs

  Java

  •0•0•0•0•Updated Oct 15, 2024Oct 15, 2024

• web.services

  Public
  General-purpose web utilities

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• web.rna

  Public
  Web interface for RNA threonine project

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• threonine

  Public
  Utilities related to the Synthetic Biology project

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• shared.meta

  Public
  Shared utilities for metabolic modeling

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• sbml.utils

  Public
  Isolated module for operations that use JSBML.

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• sample.utils

  Public
  Utility commands related to annotated samples

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• rna.utils

  Public
  Utilities for parsing and processing RNA expression data

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• rna.meta

  Public
  Utilities for processing Escher Map metabolic models

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• rna.erdb

  Public
  Maintenance and analysis utilities for the RNA Seq database

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• p3_cli

  Public
  BV-BRC command line interface scripts

  Perl

  •5•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• meta.jfx

  Public
  GUI application for metabolic pathway analysis

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• genome.bins

  Public
  Binning-related utilites

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• genome.align

  Public
  Alignment utilities

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• erdb.utils

  Public
  Java ERDB Utilities

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• dl4j.jfx

  Public
  Improved, JavaFX version of DL4J

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• dl4j.clusters

  Public
  Java command for unsupervised clustering

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• cli.utils

  Public
  Applications that use PATRIC command-line utilities

  Java

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• kmers.reps

  Public
  Java module for representative genomes

  Java

  •0•0•0•1•Updated Oct 9, 2024Oct 9, 2024

• p3api.common

  Public
  Useful PATRIC utilities

  Java

  •0•0•0•0•Updated Oct 8, 2024Oct 8, 2024

• kmers.anno

  Public
  Kmer-based annotation engine

  Java

  •0•0•0•1•Updated Oct 8, 2024Oct 8, 2024

• genome.distance

  Public
  Compute kmer distance between genomes

  Java

  •0•0•0•0•Updated Oct 8, 2024Oct 8, 2024

• genome.blast

  Public
  BLAST utilities for SEEDtk

  Java

  •0•0•0•0•Updated Oct 8, 2024Oct 8, 2024