@Public-Health-Bioinformatics

Public Health Bioinformatics

  • cpo-pipeline

    An analysis pipeline for the purpose of investigating Carbapenemase-Producing Organisms.

    Python 1 1 MIT Updated Nov 16, 2018

  • routine-nanopore-processing

    Shell 1 GPL-3.0 Updated Oct 22, 2018

  • LexMapr

    LexMapr: A Lexicon and Rule-Based Tool for Translating Short Biomedical Specimen Descriptions into Semantic Web Ontology Terms

    Python 2 2 GPL-3.0 Updated Oct 2, 2018

  • irida

    Forked from phac-nml/irida

    Canada’s Integrated Rapid Infectious Disease Analysis Platform for Genomic Epidemiology

    Java 11 Apache-2.0 Updated Jun 20, 2018

  • decision-tree

    A question and answer web form system for exploring the research questions and datasets pertinent to an emerging infectious disease outbreak.

    Makefile Updated May 9, 2018

  • blast_reporting

    A Galaxy tool that converts an NCBI BLAST XML format search result into 12, 24, 26 or custom column tabular and HTML reports.

    Python 1 2 AFL-3.0 Updated Mar 14, 2018

  • OBOFoundry.github.io

    Forked from OBOFoundry/OBOFoundry.github.io

    OBO Foundry Ontology Registry

    HTML 102 Updated Nov 29, 2017

  • obo-relations

    Forked from oborel/obo-relations

    RO is an ontology of relations for use with biological ontologies

    Web Ontology Language 13 Updated May 27, 2017

  • purl.obolibrary.org

    Forked from OBOFoundry/purl.obolibrary.org

    A new system for managing OBO PURLs

    Makefile 51 Updated Mar 10, 2017

  • IAO

    Forked from information-artifact-ontology/IAO

    information artifact ontology

    Web Ontology Language 7 Updated Feb 3, 2017

  • rcqc

    Report Calc for Quality Control is a python command line and Galaxy bioinformatics platform tool for text-mining log and data files to create reports and even to stop workflow execution in response to critical quality control issues.

    Python CC0-1.0 Updated Oct 20, 2016

  • metadata_manager

    This is a spreadsheet application to facilitate tracking, reporting, exchange, and submission of metadata for various projects involving enteric bacteria surveillance. This user-friendly entry form contains fields pertaining to isolate collection and sequencing, isolate typing, geographical information, sample source, clinical details and enviro…

    1 MIT Updated Mar 31, 2016

  • kipper

    command line versioning tool for large key-value text files

    Python 6 2 AFL-3.0 Updated Jan 29, 2016

  • versioned_data

    The Versioned Data System manages the retrieval of current and past versions of selected reference sequence databases from a local data store.

    Python 1 AFL-3.0 Updated Oct 23, 2015

  • galaxy-tool-tutorials

    Galaxy tool training materials being developed for in-house workshops.

    4 Updated Aug 27, 2015

  • ffp_phylogeny

    A Galaxy tool for calculating Feature Frequency Profiles (FFP) from fasta sequence and text data.

    Python 1 1 AFL-3.0 Updated Apr 22, 2015

  • blast_comparison

    This is a Galaxy tool to compare 24 column tabular blast search results to see differences. Used where same search is conducted against two versions of a database to determine how the database has changed and whether there are any issues with the database.

    Python 1 MIT Updated Apr 21, 2015

  • select_subsets

    A Galaxy tool to create dataset(s) of selections user has made from a tabular dataset. A separate dataset is created for each group of selected items indicated by third column [a group key]. Fourth column is unique incremented id for each row.

    Python AFL-3.0 Updated Mar 12, 2015

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@ddooley ddooley Damion Dooley
@dfornika dfornika Dan Fornika