David Winter's Projects
Special topic in computational biology
code for calling mutatons from MA lines
Code used to demonstrate the use of accuMUlate
Scripts to help prepare files for accuMulate and process the results
C++ API & command-line toolkit for working with BAM data
bedtools - the swiss army knife for genome arithmetic
My branch of Biopython - with support for Arlequin sequence files
Source of biopython.org website, migrated from MediaWiki
BLASR: The PacBio® long read aligner
A program to detect denovo-variants using next-generation sequencing data. (http://www.nature.com/nmeth/journal/v10/n10/full/nmeth.2611.html)
Fitting, simulating and generally exploring the distribution of fitness effects from MA studies
Personal academic website
Scripts and analysis utils to support a manuscript describing the Fl1 genome
Simple tool for calculating frequencies of "read alleles" in BAM file
An R api to search across and get full text for open access journals
Fungal genome annotation scripts
Working directory of of my attempt to visualize fungi-host relationships in NZ forests
Analysis of some fishy genomes
Curated list of gene names and product descriptions that pass NCBI genome submission rules.
scripts and recipies for working on Epichloe genomes
Simulations for a manuscript describing the statistical properties of the genealogical sorting index
R package to connect HyLiTE output to the DeSeq2 differential gene expression software
Working directory for analysis of kākāpō _Aspergillus_ isolates
Kinship (genetic relatedness) using GBS (genotyping-by-sequencing) with Depth adjustment