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A Java based tool to determine damage patterns on ancient DNA as a replacement for mapDamage
Detecting IBD within low coverage ancient DNA data. Development Repository for software package that contains code for manuscript.
🧹🦷 aKmerBroom: Ancient oral DNA decontamination using Bloom filters on k-mer sets
Research compendium for ‘Estimating human mobility in Holocene Western Eurasia with large-scale ancient genomic data’; If you want to perform spatio-temporal similary search with the mobest R package as presented in the paper, then you can directly check the documentation here: https://nevrome.de/mobest
Repository for data, code & figures related to the publication: "Natural products from reconstructed bacterial genomes of the Middle and Upper Paleolithic"
Estimation of natural selection and allele age from time series allele frequency data using a novel likelihood-based approach
The Clip&Merge Method for paired end read merging and adapter clipping, quality trimming and other FastQ operations.
Scripts used by George S. Long
Estimating temporally variable selection intensity from ancient DNA data
Estimating temporally variable selection intensity from ancient DNA data with a combination of forward- and backward-in-time simulations
Raw code to get polymorphisms from samples analysed by using the PowerSeq® CRM Nested System kit (Promega Corporation)
An archaeogenetic genotype data organisation file format
Inferring the timing and strength of natural selection and gene migration in the evolution of chickens from ancient DNA data
Estimating temporally variable selection intensity from ancient DNA data with the flexibility of modelling linkage and epistasis
Detecting and quantifying natural selection at two linked loci from time series data of allele frequencies with forward-in-time simulations
Pipeline for generation of fasta unique capture-probes from a set of genomes
Website for a ~2h demonstration of Poseidon and some of its tools, features and components