Maximum a posteriori estimate of contamination for ancient samples
☆23Nov 4, 2025Updated 4 months ago
Alternatives and similar repositories for schmutzi
Users that are interested in schmutzi are comparing it to the libraries listed below
Sorting:
- ☆22Jun 9, 2021Updated 4 years ago
- mapping pipeline for ancient DNA☆34Feb 20, 2026Updated last month
- ☆51Feb 18, 2026Updated last month
- This is a tool to estimate pairwise relatedness from ancient DNA, taking in account contamination, ROH, ascertainment bias.☆14Aug 6, 2024Updated last year
- command-line tools for the management of genotype likelihoods and allele counts☆30Feb 12, 2024Updated 2 years ago
- ☆12Oct 19, 2023Updated 2 years ago
- Sampling and manipulating genome-wide ancestral recombination graphs (ARGs)☆14May 1, 2023Updated 2 years ago
- ☆14May 30, 2024Updated last year
- Workflow for processing Illumina sequencing runs for ancient human DNA☆25Oct 29, 2020Updated 5 years ago
- Infer the age of ancestral nodes in a tree sequence.☆25Mar 12, 2026Updated last week
- ☆15Jul 17, 2019Updated 6 years ago
- Work for the tree sequence inference paper.☆23Oct 19, 2020Updated 5 years ago
- an R package for admixture analyses☆18May 15, 2015Updated 10 years ago
- Consensus calling (or "reference assisted assembly"), chiefly of ancient mitochondria☆19Jul 29, 2013Updated 12 years ago
- Module for analysing admixture graphs☆28Apr 30, 2018Updated 7 years ago
- Compute postmortem damage patterns and decontaminate ancient genomes☆19Apr 20, 2021Updated 4 years ago
- A statistical framework for reference-free inference of archaic local ancestry☆16Nov 8, 2019Updated 6 years ago
- Haplotype and population structure inference using neural networks.☆28Dec 5, 2024Updated last year
- Detecting IBD within low coverage ancient DNA data. Development Repository for software package that contains code for manuscript.☆14Jan 28, 2026Updated last month
- convert a multi-sample VCF file to a multiple sequence alignment (C)☆15Feb 15, 2019Updated 7 years ago
- ☆17Nov 19, 2021Updated 4 years ago
- cobraa (coalescent based reconstruction of ancient admixture): a hidden Markov model to infer ghost admixture using just a diploid sequen…☆23Jun 17, 2025Updated 9 months ago
- Fast inference of fine-scale recombination rates based on fused-LASSO☆56Feb 10, 2026Updated last month
- Exploration, clustering, visualization and classification of DNA damage patterns☆19Jan 15, 2021Updated 5 years ago
- A Java based tool to determine damage patterns on ancient DNA as a replacement for mapDamage☆18Nov 18, 2023Updated 2 years ago
- The SPrime program identifies variants that are introgressed from archaic populations.☆27May 21, 2022Updated 3 years ago
- Software for estimating genome-wide genealogies for thousands of samples☆41Oct 17, 2025Updated 5 months ago
- Method for dating admixture in ancient DNA specimens☆28Jan 12, 2022Updated 4 years ago
- Source code for the program MavericK, described fully at www.bobverity.com/maverick☆12Jun 21, 2018Updated 7 years ago
- defiNETti is a program for performing Bayesian inference on exchangeable (or permutation-invariant) data via deep learning. In particula…☆20Apr 10, 2018Updated 7 years ago
- HaploGrep - mtDNA haplogroup classification. Supporting rCRS and RSRS.☆77Feb 28, 2023Updated 3 years ago
- Software to call ROHs☆17Oct 15, 2025Updated 5 months ago
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Aug 24, 2022Updated 3 years ago
- Low Coverage Calling of Genotypes☆166Feb 28, 2026Updated 3 weeks ago
- ☆15Dec 3, 2024Updated last year
- A workflow for integrating ancient lineages into present-day phylogenies.☆32Jul 7, 2025Updated 8 months ago
- Pipelines and tools for the processing of ancient and modern HTS data.☆48Mar 6, 2026Updated 2 weeks ago
- Economic Genome Assembly from Low Coverage Illumina and Nanopore Data☆19Feb 15, 2022Updated 4 years ago
- a toolkit for evaluation of the lenght of k-mer in a given genome dataset for alignment-free phylogenimic analysis.☆15Nov 21, 2024Updated last year