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pandas-cookbook

Recipes for using Python's pandas library

patpro

Visualizing Temporal Microbiome Data

pcadapt

pcadapt has been developed to detect genetic markers involved in biological adaptation. pcadapt provides statistical tools for outlier detection based on Principal Component Analysis (PCA).

performr

phylotocol

template, example, and instructions on how to make an a priori phylogenetic protocol

phylotu

PhylOTU identifies microbial OTUs from metagenomic data

picante

R tools for integrating phylogenies and ecology

picrust

Phylogenetic Investigation of Communities by Reconstruction of Unobserved STates (PICRUST): Official repository for software and unit tests

pinskylab_methods

Methods used by many of us in the lab

pivot

Platform for Interactive analysis and Visualization Of Transcriptomics data

popgen-notes

Population genetics notes

posterdown

Use RMarkdown to generate Latex PDF Conference Posters

practice.module

predator_phylogenetic_diversity

predator phylogenetic diversity / ecosystem function

protocols

Mandel Lab Protocols

psych10-book

Source files for Statistical Thinking For the 21st Century

pyfasta

fast, memory-efficient, pythonic (and command-line) access to fasta sequence files

python-ecology-lesson

:page_with_curl: Data Carpentry Python lessons on ecology

qiime

Quantitative Insights Into Microbial Ecology (QIIME): Official repository for software and unit tests

quantitative_ecology_wiki

An exploration of GLM, random effects and mixed-effects, from the point of view of (a) young ecologist(s)

r-ecology-lesson

:notebook: Data Carpentry R lessons on ecology.

r-graph-gallery

A website that displays hundreds of R charts

r-novice-gapminder-1

Introduction to R for non-programmers using gapminder data.

rad-pipeline

A customisable pipeline for processing RADseq data

rad_analysis_workflow

A bioinformatics protocol for analysing genotypes using restriction site associated DNA sequencing data

radiator

RADseq Data Exploration, Manipulation and Visualization using R

radpipe

Daren's RADseq pipeline. Currently in development.

raster2data

This repository provides some introductory guidance for working with spatial image files, like rasters, and converting these to dataframes in R in order to perform statistical analyses. Includes an example satellite image and R code.

rayshader

R Package for Producing and Visualizing Hillshaded Maps from Elevation Matrices, in 2D and 3D

rep-res-examples

Examples