dentearl/quick_plot
quick_plot is a python program that plots one or two column flat files from the command line.
Developer Profile
dentearl
Discovered public repositories for dentearl in the GitHub catalog.
dentearl/cairo_visualization_wheel
cairo_visualization_wheel is a Python script that uses matplotlib to create visualization wheels as seen in Alberto Cairo's book The Functional Art http://www.thefunctionalart.com/2012/09/download-three-chapters-of-functional.html (see Figure 3.2).
dentearl/ascii_plots
Convenience function for quick and dirty data analysis
dentearl/faMask
Utility to mask fasta formated files using a .bed file to define the regions to mask.
dentearl/mafJoin
mafJoin is a tool for combining pairs of MAF files that share a common sequence.
dentearl/fisherWrightCoalPlotter
A script to make Fisher-Wright Coalescent plots using dot from graphviz
dentearl/structureHarvester
Structure Harvester is a program for parsing the output of Pritchard's STRUCTURE and for performing the Evanno method.
dentearl/StatSigMA-w
Given a multiple sequence alignment and a phylogeny relating the aligned sequences, StatSigMAw assesses every site of the alignment and identifies suspiciously aligned regions in the alignment. Xiaoyu Chen and Martin Tompa, "Comparative assessment of methods for aligning multiple genome sequences". Nature Biotechnology, vol. 28, no. 6, June 2010, 567-572. doi:10.1038/nbt.1637
dentearl/simpleHilbertCurve
Script to plot 1D data in 2D using the Hilbert Curve. Honestly a pretty terrible visualization technique for conveying information, but it looks cool.
dentearl/authorAffiliations
Script to handle superscripted numbers for academic papers that have many authors (>20) and complex affiliations
dentearl/n50PlottingTools
Tools to create plots showing N-statistics for genome assemblies
dentearl/spia_c
Signaling Pathway Impact Analysis (SPIA) refactored into C
dentearl/avgViewer
Ancestral Variation Graph (AVG) viewer in javascript
dentearl/mwgAlignAnalysis
Multiple Whole Genome Alignment Testing Suite
dentearl/evolverSimControl
jobTree based python wrapper to run the genome simulation tool suite Evolver
dentearl/assemblAnalysis
Analysis scripts to generate Tables and Figures for Assemblathon 1
dentearl/evolverInfileGeneration
Scripts and Makefile to generate infile set for the Evolver suite of genome evolution simulation tools.
dentearl/summary
summary() from the R project refactored to run on the command line for use in pipes!
dentearl/stem
The R function stem() ported to run on the command line for use in pipes!
dentearl/mafTools
Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.