standage

Husband, father, scholar, scientist, programmer, lapsed musician, flipper of pancakes, baker of biscuits.

Frederick, MD

Pinned Repositories

MicroHapDB
Portable database of microhaplotype marker and allele frequency data
Language:Python9 3 614
AEGeAn
Integrated toolkit for analysis and evaluation of annotated genomes
Language:C24 4 20310
pdom-genome-project
Polistes dominula genome project, a collaboration between the Insect Sociogenomics Lab at Iowa State University and the Computational Genome Science Lab at Indiana University
Language:Makefile7 3 11
khmer
In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more
Language:Python757 68 1k295
kevlar
Reference-free variant discovery in large eukaryotic genomes
Language:Python41 5 1699
cli-tutorial
Tutorial on "Designing command-line interfaces (CLIs) for scientific software" intended for scientists with beginner-level skills in programming and UNIX/Linux.
Language:C3 2 30
genhub
Explore eukaryotic genome composition and organization with iLoci
Language:Python6 3 373
kmer-ology
Language:Jupyter Notebook5 3 01
sequniq
Language:Python2 2 30
tag
Genome annotation data analysis and management implemented in pure Python
Language:Python8 2 301

standage's Repositories

standage/AEGeAn
Integrated toolkit for analysis and evaluation of annotated genomes
Language:C1 1 0
standage/cython-packaging-demo
Language:Python1 1 0
standage/geneannology-manuscript
1 2 0
standage/nuclmm
Simple Markov model of nucleotide composition for simulation and sequence analysis
Language:Python1 1 0
standage/snds-demo-2017-09-07
Language:Python1 5 00
standage/2015-petMarSB
Many-sample de novo assembly of the sea lamprey transcriptome
Language:Jupyter Notebook
standage/2017-03-22-csumb
Website for 2017 CSUMB Data Carpentry genomics workshop
Language:Python1 0
standage/bghandbook
Handbook for Brendel Group students, postdocs, and staff
Language:Python
standage/data_hacks
Command line utilities for data analysis
Language:Python1 0
standage/dib-lab
Issue tracker and Web site for the Lab for Data Intensive Biology at UC Davis.
Language:Python1 0
standage/dockstore-training-fastqc-dss
1 0
standage/FirstCWLWorkflow
1 0
standage/FMAB
Fundamental Models and Algorithms in Bioinformatics
Language:Python1 0
standage/genometools
GenomeTools genome analysis system.
Language:C2 0
standage/IntervalLoci
Supplemental documentation for the iLocus paper
Language:Jupyter Notebook1 0
standage/ksw2-align
Trying to use ksw2 as a library
Language:C
standage/managing-research-software-projects
Managing small to medium-sized research software projects.
Language:JavaScript1 0
standage/megahit-dockstore
1 0
standage/MMETSP
re-assembly and analysis of the Marine Microbial Eukaryotic Transcriptome Sequencing Project
Language:Jupyter Notebook
standage/mrsp-2017-09-07-lbl
Workshop on managing small to medium-sized research software projects. Held at LBL in September 2017.
Language:JavaScript1 0
standage/noble
A collection of data sets for benchmarking de novo variant discovery tools
Language:Python1 0
standage/OpenRefine-ecology-lesson
Lesson on OpenRefine for ecology
Language:HTML1 0
standage/packagetest
Language:Python1 0
standage/pj
Private journal
Language:CSS2 0
standage/rollinghashcpp
Rolling Hash C++ Library
Language:C++
standage/Shannon
RNA-Seq
Language:Python
standage/snds-demo
Language:Python1 01
standage/Specifications
GFF and GVF specification documents
1 0
standage/strim
Stream Trimmomatic For Great Good
Language:Shell1
standage/tag-dockstore-test
1 0