nawrockie
Staff scientist at NCBI
National Center for Biotechnology Information, National Library of Medicine, National Institutes of HealthBethesda, MD
Pinned Repositories
infernal
RNA secondary structure/sequence profiles for homology search and alignment
Bio-Easel
Perl modules and scripts for interfacing with Sean Eddy's C easel sequence analysis library using Perl's Inline.
cmsearch_tblout_deoverlap
Script that removes lower scoring overlaps from cmsearch v1.1x --tblout files.
dnaorg_virus_report
Generate a report about viral sequences given output from dnaorg_virus_wrapper.pl.
epn-ofile
Perl module for output file handling
epn-options
Perl module for handling command line options, based on Sean Eddy's esl_getopts module from the Easel C library.
jiffy-infernal-hmmer-scripts
Simple perl scripts for dealing with infernal and/or hmmer output/input.
sequip
Perl module for biological sequence analysis and supporting utilities.
ribovore
vadr
Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation
nawrockie's Repositories
nawrockie/jiffy-infernal-hmmer-scripts
Simple perl scripts for dealing with infernal and/or hmmer output/input.
nawrockie/Bio-Easel
Perl modules and scripts for interfacing with Sean Eddy's C easel sequence analysis library using Perl's Inline.
nawrockie/cmsearch_tblout_deoverlap
Script that removes lower scoring overlaps from cmsearch v1.1x --tblout files.
nawrockie/epn-ofile
Perl module for output file handling
nawrockie/epn-options
Perl module for handling command line options, based on Sean Eddy's esl_getopts module from the Easel C library.
nawrockie/epn-test
Perl module for testing perl scripts or perl-based packages.
nawrockie/sequip
Perl module for biological sequence analysis and supporting utilities.
nawrockie/docker-builds
:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics
nawrockie/esl-randomize-sqfile
A script to randomly partition a sequence file, using easel miniapps, originally written in April 2013.
nawrockie/final-project
nawrockie/jiffy-ncbi-scripts
Jiffy scripts for use with ncbi tools.
nawrockie/jiffy-sequence-analysis-scripts
Jiffy PERL scripts for biological sequence analysis.
nawrockie/m-hydra-public
Public repo for hydra manuscript work.
nawrockie/ncbi-rrna-project
Files related to a collaborative project with Alejandro Schaffer, Rich McVeigh and the taxonomy team and others at NCBI.
nawrockie/ribovore-paper-2021-supplementary-material
Supplementary material for article describing the Ribovore software package, submitted Feb 2021
nawrockie/spring2020
FAES Applied Machine Learning
nawrockie/summer2024-notes
Notes for summer 2024
nawrockie/talk_benasque2022_vadr
Slides for talk on VADR at Benasque 2022
nawrockie/talk_bosc_vadr_apr2021
nawrockie/talk_curation_at_scale
Slides for 15 minute talk at NLM Curation at Scale 2022 workshop
nawrockie/talk_defense_20090828
Slides from thesis defense presentation on Aug 28, 2009
nawrockie/talk_ieb_vadr_jan2020
Talk on VADR for IEB seminar on Jan 16, 2020.
nawrockie/talk_kindergarten_career_day
Slides for virtual presentation for career day for Nathan's kindergarten class
nawrockie/talk_spheres_vadr_oct2020
Slides for part of virtual presentation to SPHERES consortium
nawrockie/talk_staphb_vadr_june2021
Slides for presentation to staph-b on 6/22/21
nawrockie/talk_toast_vadr_apr2021
Slides for talk at CDC's TOAST group 'office hours' on 4/23/21
nawrockie/vadr-build-tools
Scripts to assist in creating VADR model libraries
nawrockie/vadr-extra
Files related to vadr that don't belong in the main repo.
nawrockie/vadr-flu-paper-supplementary-material
Supplementary material for the 2024 vadr influenza paper.
nawrockie/vadr-sarscov2-paper-supplementary-material
Supplementary material for 'Faster SARS-CoV-2 sequence validation and annotation for GenBank using VADR', submitted April 2022