tandermann/python_for_biologists

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tandermann/python_for_biologists

tandermann

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Here you can find all tutorials and materials for the GGBC python for biologists course

iucn_extinction_simulator

A program for estimating extinction probability and date for a given set of species, based on IUCN threat assessments

iucnsim

iucnsim R-package

snp_extraction_from_alignments

This repository contains tools for the extraction of Single Nucleotide Polymorphisms (SNPs) from multiple sequence alignments.

paleovegetation

Code and data related to the reconstruction of paleovegetation using BNNs

pop_gen_workshop_2017

This is a collection of exercises, scripts and notes from the workshop on demographic inference, 2017, Tjärnö, Sweden (with Daniel Wegmann and Matteo Fumagalli))

Jupyter Notebook

spatial_R_course

Here you can find all tutorials and materials for the GGBC spatial R workshop

UCE-data-management

This repository containes a detailed description (see Wiki) of the process of extracting UCE-contigs from your Illumina read data and how to label and align them and eventually how to analysze this dataset phylogenetically with MPEST and MrBayes

workshops

online material for various workshops

bayesian_course_2017

Contents and scripts of the ForBio course 'Bayes in Practice' taught by Daniele Silvestro

Jupyter Notebook

NN_diversity_prediction

Processing-Illumina-reads

ai_workshop

Data, tutorial, and lecture slides for building custom neural network models

runForest

A command line interface program to apply the RandomForest machine learning model for feature selection and classification of unknown data points

feature_gen_paleoveg

Experimental code to produce meaningful space-time distance features, using NNs

assembling-complete-mt-genome

This repository contains tools for an automated assembly of the complete mitochondrial DNA from Illumina NGS data

topaza_uce

all files and commands related to the topaza UCE allele phasing project