Name: Dr. K. D. Murray
Type: User
Company: Max Planck Institut für Entwicklungsbiologie, Tübingen
Bio: Postdoctoral Fellow in Plant-pathogen Evolutionary Genomics.
Consultant in Bioinformatics.
Formerly at ANU, Canberra
Location: Tübingen, DE
Blog: https://kdmurray.id.au
Dr. K. D. Murray's Projects
extension for python markdown to lightbox images
Markdown Preview + Community Features
Fast genome and metagenome distance estimation using MinHash
Replacement for MHVDB. Needs a better name.
Paper and source for AB3ACBS 2016 presentation: Mighty Morphin FASTA Files
Quality control for MinION sequencing data
MITObim - mitochondrial baiting and iterative mapping
fast BAM/CRAM depth calculation for WGS, exome, or targetted sequencing
Markovian sequence generator
Example LD simulation with recombination using ms and libsequence.
A conda-smithy repository for msprime.
Updated version of MultipartPostHandler
strip output from Jupyter and IPython notebooks
NextGenMap is a flexible highly sensitive short read mapping tool that handles much higher mismatch rates than comparable algorithms while still outperforming them in terms of runtime. This allows analysing large scale datasets even with increased SNP rates or higher error rates (e.g. caused by specialized experimental protocols) and avoids biases caused by highly variable regions in the genome.
Vim plugin to work with R
Tools for managing natural variation collections
Align all the Arabidopsis!
Online alignment prototypes for ANU improvements to AUGUR
This is the ooni pipeline for doing data analytics on the collected reports
github copy of OONI-probe https://gitweb.torproject.org/ooni-probe.git
Iterative extraction of busco loci from short read datasets for phylo purposes
An extension of @vsbuffalo's pairs
My homebrew tap. Mostly bioinformatics
Pandoc filter for cross-references
Take notes using vim, pandoc, xetex and vim-pandoc
Templates for pandoc
Pan-genome inference and genotyping with long noisy or short accurate reads
Analysis of ~1000 eucalyputs genomes with the acanthophis pipeline