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  • National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health
  • Bethesda, MD

Achievements

Achievement: Pair ExtraordinaireAchievement: QuickdrawAchievement: Pull Sharkx2Achievement: StarstruckAchievement: Arctic Code Vault Contributor

Achievements

Achievement: Pair ExtraordinaireAchievement: QuickdrawAchievement: Pull Sharkx2Achievement: StarstruckAchievement: Arctic Code Vault Contributor

Highlights

  • Pro

Organizations

@ncbi @EddyRivasLab

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  • Bio-Easel Public

    Perl modules and scripts for interfacing with Sean Eddy's C easel sequence analysis library using Perl's Inline.

    Perl 4 1 Other Updated Oct 25, 2024

  • jiffy-sequence-analysis-scripts Public

    Jiffy PERL scripts for biological sequence analysis.

    Perl Updated Oct 17, 2024

  • jiffy-infernal-hmmer-scripts Public

    Simple perl scripts for dealing with infernal and/or hmmer output/input.

    Perl 5 2 Updated Sep 6, 2024

  • vadr-extra Public

    Files related to vadr that don't belong in the main repo.

    1 Updated Jul 9, 2024

  • sequip Public

    Perl module for biological sequence analysis and supporting utilities.

    Perl Other Updated Jun 26, 2024

  • vadr-flu-paper-supplementary-material Public

    Supplementary material for the 2024 vadr influenza paper.

    Perl Updated Jun 21, 2024

  • summer2024-notes Public

    Notes for summer 2024

    Updated Jun 3, 2024

  • docker-builds Public

    Forked from StaPH-B/docker-builds

    📦 🐳 Dockerfiles and documentation on tools for public health bioinformatics

    Dockerfile GNU General Public License v3.0 Updated Apr 9, 2024

  • esl-randomize-sqfile Public

    A script to randomly partition a sequence file, using easel miniapps, originally written in April 2013.

    Perl Other Updated Nov 15, 2023

  • cmsearch_tblout_deoverlap Public

    Script that removes lower scoring overlaps from cmsearch v1.1x --tblout files.

    Perl 2 4 Other Updated Aug 9, 2023

  • vadr-sarscov2-paper-supplementary-material Public

    Supplementary material for 'Faster SARS-CoV-2 sequence validation and annotation for GenBank using VADR', submitted April 2022

    Perl Updated Dec 15, 2022

  • talk_benasque2022_vadr Public

    Slides for talk on VADR at Benasque 2022

    TeX Updated Aug 12, 2022

  • talk_curation_at_scale Public

    Slides for 15 minute talk at NLM Curation at Scale 2022 workshop

    TeX Updated Mar 30, 2022

  • talk_kindergarten_career_day Public

    Slides for virtual presentation for career day for Nathan's kindergarten class

    TeX Updated Mar 15, 2022

  • talk_defense_20090828 Public

    Slides from thesis defense presentation on Aug 28, 2009

    TeX Updated Mar 15, 2022

  • ribovore-paper-2021-supplementary-material Public

    Supplementary material for article describing the Ribovore software package, submitted Feb 2021

    Shell Updated Jul 13, 2021

  • talk_staphb_vadr_june2021 Public

    Slides for presentation to staph-b on 6/22/21

    TeX Updated Jun 25, 2021

  • talk_toast_vadr_apr2021 Public

    Slides for talk at CDC's TOAST group 'office hours' on 4/23/21

    TeX Updated Jun 22, 2021

  • vadr-build-tools Public

    Scripts to assist in creating VADR model libraries

    Perl Updated Apr 26, 2021

  • talk_bosc_vadr_apr2021 Public

    TeX Updated Apr 22, 2021

  • ncbi-rrna-project Public

    Files related to a collaborative project with Alejandro Schaffer, Rich McVeigh and the taxonomy team and others at NCBI.

    Perl Updated Dec 18, 2020

  • talk_spheres_vadr_oct2020 Public

    Slides for part of virtual presentation to SPHERES consortium

    TeX Updated Oct 29, 2020

  • epn-ofile Public

    Perl module for output file handling

    Perl 1 Updated Jun 24, 2020

  • epn-test Public

    Perl module for testing perl scripts or perl-based packages.

    Perl 1 Updated Jun 24, 2020

  • epn-options Public

    Perl module for handling command line options, based on Sean Eddy's esl_getopts module from the Easel C library.

    Perl 1 Updated Jun 24, 2020

  • spring2020 Public

    Forked from biof509/spring2020

    FAES Applied Machine Learning

    Jupyter Notebook Updated Feb 19, 2020

  • jiffy-ncbi-scripts Public

    Jiffy scripts for use with ncbi tools.

    Perl Updated Feb 13, 2020

  • final-project Public

    Forked from biof509/final-project
    Jupyter Notebook Updated Feb 6, 2020

  • talk_ieb_vadr_jan2020 Public

    Talk on VADR for IEB seminar on Jan 16, 2020.

    TeX Updated Jan 16, 2020

  • m-hydra-public Public

    Public repo for hydra manuscript work.

    Updated Jan 2, 2020