brunoasm Goto Github PK

2020-08-11-smithsonian

Workshop website for August 11/12 and 18/19 Data Carpentry

callipogon_sdm

Species distribution modeling of Callipogon relictus

cil_image_scaler

Shiny interface to place scales in CIL images

demedeiros_farrell_2018_peerj

Code used in de Medeiros BAS, Farrell BD. (2018) Whole-genome amplification in double-digest RADseq results in adequate libraries but fewer sequenced loci. PeerJ 6:e5089 https://doi.org/10.7717/peerj.5089

discretizr

A web interface to help creating discrete morphological characters for phylogenies from measurements

dryophthorinae_rrna

Phylogenetic analyses of Dryophthorinae using rRNA

eleicoes2018

App para visualizar a distribuição dos votos para deputado em SP por zona eleitoral

fastai_course

A repository with homework that I did for fast.ai course v3 (https://course.fast.ai/index.html)

geocoding

Repository with python scripts to do geocoding

ggtree

:christmas_tree:Visualization and annotation of phylogenetic trees

inaturalist_tools

Scripts to interact with iNaturalist API

insect_egg_phylogeny

Scripts used to assemble the phylogenetic dataset, infer trees and plot them in Church et al 2019 (https://doi.org/10.1101/471946)

insect_ovariole_number_evolution_2020

Data and code to reproduce the analyses and figures in the manuscript

ipyrad_tools

A collection of scripts that I use to change ipyrad output into other formats

labrundinia_phylo

Code used to process Illumina data for Labrundinia phylogeny

matrix_condenser

An interactive tool to visualize the effects of reducing missing data or removing samples in ddRAD and other similar datasets

medeiros_rbe_2016

Scripts used in analyses and graphs of Medeiros et al.

phylo_scripts

Scripts for working with data and files related to phylogenetics.

rad_palm_weevil

Code used in the analyses of population divergence of palm-associated weevils, published at https://doi.org/10.1038/s42003-020-01482-3

revision_anchylorhynchus

Scripts and data files used in the taxonomic revision and morphological phylogeny of Anchylorhynchus

scpp

Pipeline for SCPP data

seqcap_processor

Bioinformatic pipeline for processing Sequence Capture data for Phylogenetics

shell-genomics

taxreformer

A python program to check species names on Open Tree Taxonomy and Global Names Server

tt_tools

Tools for Trees and Taxonomy

usnps_to_nexus

A simple script that converts pyRAD unlinked_snps file to a NEXUS file suitable for SNAPP

varkoder

Tool for DNA barcoding based on variation in short k-mer frequencies