Donovan H. Parks (donovan-h-parks)

donovan-h-parks

Geek Repo

Company:Bioinformatic consultant

Location:Canada

Twitter:@donovan_parks

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Donovan H. Parks's repositories

CompareM

A toolbox for comparative genomics.

Language:PythonLicense:GPL-3.0Stargazers:90Issues:7Issues:35

STAMP

Statistical Analysis of Metagenomic Profiles

Language:PythonLicense:GPL-3.0Stargazers:89Issues:14Issues:43

RefineM

A toolbox for improving metagenome-assembled genomes.

Language:PythonLicense:GPL-3.0Stargazers:62Issues:5Issues:52

Background-Subtraction-Library

C++ background substraction library

Language:C++License:GPL-3.0Stargazers:45Issues:8Issues:0

PhyloRank

Assign taxonomic ranks based on evolutionary divergence.

Language:PythonLicense:GPL-3.0Stargazers:21Issues:0Issues:0

UniteM

Ensemble binning strategies for combining the output of multiple binning methods.

Language:PythonLicense:GPL-3.0Stargazers:17Issues:2Issues:2

biolib

Python package for common tasks in bioinformatic.

Language:PythonLicense:GPL-3.0Stargazers:13Issues:2Issues:3

GenomeTreeTk

A toolbox for working with genome trees.

Language:PythonLicense:GPL-3.0Stargazers:10Issues:0Issues:0

ExpressBetaDiversity

Taxon- and phylogenetic-based beta diversity measures.

Language:C++License:GPL-3.0Stargazers:6Issues:2Issues:7

FragmentClassificationPackage

Homology- and composition-based classifiers for assigning a taxonomic attribution to metagenomic fragments.

Language:C++Stargazers:5Issues:0Issues:0

pygmy

Visualization of large trees and associated metadata

Language:C++License:GPL-3.0Stargazers:5Issues:2Issues:0

GeneTreeTk

A toolbox for working with gene trees.

Language:PythonLicense:GPL-3.0Stargazers:4Issues:0Issues:0

ANI-Cache

Cache-aware ANI calculations.

Language:PythonLicense:GPL-3.0Stargazers:3Issues:2Issues:1

CommunityM

Identify, classify, and assemble 16S reads in metagenomic data.

Language:PythonLicense:GPL-3.0Stargazers:3Issues:0Issues:0

Art

Generative art projects

Language:HTMLLicense:GPL-3.0Stargazers:1Issues:2Issues:0

DBB

Bin scaffolds from a single metagenomic sample into population genomes.

Language:PythonLicense:GPL-3.0Stargazers:1Issues:2Issues:2

DBSCAN

Clustering of sequences from environmental samples.

Language:C++Stargazers:1Issues:3Issues:0

DrawM

A toolkit for creating publication-quality images of phylogenetic trees.

Language:PythonLicense:GPL-3.0Stargazers:1Issues:2Issues:3

GenomeTk

A toolbox for working with genome.

Language:PythonLicense:GPL-3.0Stargazers:1Issues:2Issues:0

PETs

Putative Evolutionary Trees

Language:C++License:GPL-3.0Stargazers:1Issues:2Issues:0

ViewM

Visualization of functional modules to aid biological interpretation of genomes.

License:GPL-3.0Stargazers:1Issues:2Issues:0

advent-of-code

Solutions for Advent of Code

Language:PythonLicense:GPL-3.0Stargazers:0Issues:0Issues:0

finch-rs

A genomic minhashing implementation in Rust

Language:RustLicense:MITStargazers:0Issues:0Issues:0

LinkM

Finds links between 16S reads and assembled contigs.

License:GPL-3.0Stargazers:0Issues:2Issues:0

math-as-code

a cheat-sheet for mathematical notation in code form

License:MITStargazers:0Issues:1Issues:0

NCBI_ftp

python code for bioinformatics projects

Language:PythonStargazers:0Issues:1Issues:0

Prodigal

Prodigal Gene Prediction Software

Language:CLicense:GPL-3.0Stargazers:0Issues:1Issues:0

Roary

Rapid large-scale prokaryote pan genome analysis

Language:PerlLicense:NOASSERTIONStargazers:0Issues:1Issues:0

SketchM

Fast genome ANI estimation using k-mer sketches.

Language:RustLicense:GPL-3.0Stargazers:0Issues:1Issues:0

vega_templates

Python templates for creating visualizations using the Vega visualization grammar

License:GPL-3.0Stargazers:0Issues:0Issues:0