snacktavish

TreeToReads

Pipeline to generate NGS reads from a phylogeny

OpenTree_SSB2020

doi-search

phycorder

pipeline to place taxa in a phylogeny using NGS reads

TreeUpdatingComparison

2017-08-17-Yosemite

automation-RR-Jupyter

Automation with Jupyter notebooks

BirdTree_data

cdc-wonder-api

This repo provides examples in python for creating, sending, and processing a request from the CDC WONDER API, specifically for the Detailed Mortality database. For a reference of the available codes/parameters, see the wiki.

clootl

datelife

R package containing datelife's core functionality

example_scripts

Intensiphy

Cron job wrapper for Extensiphy to automate the acquisition of data when updating sequence alignments.

KB-DataFest-2017

Promoting Phenoscape KB Data Access and Interoperability Codefest, 2017

mercedRRdemo

demo repo for sharing jupyter notebooks

Mole2022

Tutorial and files

neisseria_demo_data

otindex_ansible

ansible playbook for installation of OpenTree otindex

peyotl

python library for interacting with Open Tree of Life resources

phylocomr

Phylocom R interface

project-reproducibility

An example of a reproducible project.

rgbif

Wrapper to the Global Biodiversity Information Facility API

rotl

Interface to Open Tree of Life API

rotl_citations

old rotl fork with cite data

sequence_data_exercise

staged-recipes

A place to submit conda recipes before they become fully fledged conda-forge feedstocks

tmpfiles

tutorials2021ms

ucmerced-dc

Working repo for Data Carpentry

Urise2023