gwct

bonsai

Algorithm for paring trees based on branch support

core

My personal core functions and scripts for manipulating sequence data, phylogenetic trees, and other things.

GenomeAnnotation

Best practices and workflow for genome annotation

grampa

Gene-tree Reconciliation Algorithm with MUL-trees for Polyploid Analysis

gwct

Genome-Wide Convergence Tester

hyphy-interface

Generates commands and scripts to run HyPhy and parse its output

murine-discordance

Data, scripts, and other resources to accompany murine discordance manuscript

owl-monkey

Markdown and code for figures in owl monkey paper

referee

Reference genome quality scores

spider-wgd

gwct/referee

Reference genome quality scores

gwct/grampa

Gene-tree Reconciliation Algorithm with MUL-trees for Polyploid Analysis

gwct/gwct

Genome-Wide Convergence Tester

gwct/core

My personal core functions and scripts for manipulating sequence data, phylogenetic trees, and other things.

gwct/murine-discordance

Data, scripts, and other resources to accompany murine discordance manuscript

gwct/bonsai

Algorithm for paring trees based on branch support

gwct/GenomeAnnotation

Best practices and workflow for genome annotation

gwct/hyphy-interface

Generates commands and scripts to run HyPhy and parse its output

gwct/spider-wgd

gwct/turtle-genomics

Web resources for the comparative turtle genomics project

gwct/bioconda-recipes

Conda recipes for the bioconda channel.

gwct/congen-bioinformatics

A repo for the ConGen 2022 introductory bioinformatics workshop

gwct/fish-genomics

gwct/github-intro

A hands-on introduction to git/github

gwct/good-protocols

A space for Good lab members to document their pipelines and protocols.

gwct/gwct.github.io

My website

gwct/healthy-habits

gwct/isofilter-gff

Retrieval of longest isoform from gff file

gwct/macaque-cnv-figs

Data and scripts for reproducible figures to accompany our macaque CNV paper.

gwct/mp-est

MP-EST estimates species trees from a set of gene trees by maximizing a pseudo-likelihood function

gwct/murinae-docs

gwct/murinae-seq

Resources and documents relating to the large-scale rodent sequencing projects.

gwct/mus-t-haplotype

gwct/my-new-repo

Example repo creation

gwct/oeb275r-phyloacc-data

gwct/pafr

Read, manipulate and visualize 'Pairwise mApping Format' data in R

gwct/phast_scripts

gwct/PhyloAcc

PhyloAcc a software to detect the changes of conservation of a genomic region

gwct/sample-reads

Randomly sample reads from BAM files based on tags and split them

gwct/UM-CoV-Seq

Pipelines and protocols for SARS-CoV-2 sequencing at the University of Montana