dwinter
Computational evolutionary biology using R, Python and (sometimes) C++
Wellington, New Zealand
Pinned Repositories
accuMUlate
code for calling mutatons from MA lines
Fungal-Foray
Working directory of of my attempt to visualize fungi-host relationships in NZ forests
genome_factory
scripts and recipies for working on Epichloe genomes
mmod
Differentiation statistics in R
pafr
Read, manipulate and visualize 'Pairwise mApping Format' data in R
rensembl
Get Ensembl data in R using the REST API
repeatR
read and analyse RepeatMasker output
nz-sars-cov2-variants
Data on prevalence of variants of concern in Aotearoa New Zealand
rentrez
talk with NCBI entrez using R
rotl
Interface to Open Tree of Life API
dwinter's Repositories
dwinter/pafr
Read, manipulate and visualize 'Pairwise mApping Format' data in R
dwinter/repeatR
read and analyse RepeatMasker output
dwinter/genome_factory
scripts and recipies for working on Epichloe genomes
dwinter/accuMUlate
code for calling mutatons from MA lines
dwinter/kakapo_aspergillosis
Working directory for analysis of kākāpō _Aspergillus_ isolates
dwinter/pafr-demo
A repository with code to demonstrate complete analyses using pafr and minimap2
dwinter/2019-iEvoBio
dwinter/247.782
Special topic in computational biology
dwinter/bedtools2
bedtools - the swiss army knife for genome arithmetic
dwinter/computing-for-biologists
dwinter/CyclicPeptidedNdS
dwinter/dwinter
dwinter/dwinter.info
Personal academic website
dwinter/fl1_genome_scripts
Scripts and analysis utils to support a manuscript describing the Fl1 genome
dwinter/gene2product
Curated list of gene names and product descriptions that pass NCBI genome submission rules.
dwinter/hyliter
R package to connect HyLiTE output to the DeSeq2 differential gene expression software
dwinter/LoReAn
Long Reads Annotation pipeline
dwinter/mollusc_worshop_example
Working directory to demonstratea exploratory analyses on a GBS dataset
dwinter/ngmlr
NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on reads that span structural variations
dwinter/OrthologScripts
Master code for orthology differentiation
dwinter/Paga_annotation
Analyses associated with the annotation of the P. agathidicida genome
dwinter/reffectorP
automat requests to the effectorP web site
dwinter/shell-genomics
dwinter/so-simple-theme
A simple Jekyll theme for words and pictures.
dwinter/SpeciesTree
R Code for species tree 25.11.19
dwinter/tepapar
dwinter/ToTidy
Code to produce trees and heatmaps for B-tub and all species to be iterable
dwinter/WhatToExpect
dwinter/WhatToExpect_demo
dwinter/wrangling-genomics