This is a tool for speculation of ancestral allel, calculation of sfs and drawing its bar plot. It is easy-to-use and runing fast. What you should prepare is the phased vcf file containg the data of populations you interested and the outgroup, the outgroup name file, and the annotation file. Enjoy it!!!
☆11Dec 16, 2022Updated 3 years ago
Alternatives and similar repositories for superSFS
Users that are interested in superSFS are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- HaploSweep is a method for detecting and categorizing soft and hard selective sweeps based on haplotype structure.☆11Sep 24, 2024Updated last year
- Selection outlier scan with population branch statistic☆15Feb 21, 2024Updated 2 years ago
- Scripts for Wang et al (2020) Evidence for widespread selection in shaping the genomic landscape during speciation of Populus.☆11Feb 15, 2020Updated 6 years ago
- Efficient Local Ancestry Inference☆17Nov 10, 2025Updated 4 months ago
- Create genomic databases with SIFT predictions. Input is an organism's genomic DNA (.fa) file and the gene annotation file (.gtf). Output…☆32Sep 23, 2023Updated 2 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Hybrid error correction approach for long reads using overlap graph☆11Sep 26, 2023Updated 2 years ago
- use variant nesting information to flter overlapping sites from vg deconstruct output☆32Jun 12, 2025Updated 9 months ago
- Fast and flexible inference of the distribution of fitness effects (DFE), VCF-SFS parsing with ancestral allele and site-degeneracy annot…☆18Mar 21, 2026Updated last week
- NLR-Annotator upload☆76Jul 19, 2023Updated 2 years ago
- A software package for local ancestry inference and haplotype phasing☆45Apr 20, 2023Updated 2 years ago
- Set of scripts to manupulate tab-delimited genotype calls files as well as to convert calls-files to other popular formats.☆10Jan 11, 2021Updated 5 years ago
- feature-based deep learning for the identification of selective sweeps☆59Feb 7, 2026Updated last month
- Software for detecting introgression using supervised machine learning☆21Nov 21, 2022Updated 3 years ago
- Mutual nearest neighbor graphs for population structure inference and visualization☆18Dec 4, 2025Updated 3 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Integrate multiple genome assemblies into a pangenome graph☆37Jun 9, 2022Updated 3 years ago
- A module for improving the insertion sequences of structural variant calls☆33Jul 14, 2021Updated 4 years ago
- Hybridization detection using phylogenetic invariants☆52Oct 29, 2024Updated last year
- Topology weighting by iterative sampling of sub-trees☆86Jan 5, 2025Updated last year
- Distinguishing among modes of convergent adaptation using population genomic data: statistical inference method, extensions, and examples☆13May 1, 2019Updated 6 years ago
- Scripts to analyze data using TreeMix. This pipeline runs TreeMix with bootstrapping, helps choose number of migration events and creates…☆46Mar 7, 2024Updated 2 years ago
- Efficient Permutation-based GWAS for Normal and Skewed Phenotypic Distributions☆34Nov 14, 2024Updated last year
- ☆18Jul 15, 2021Updated 4 years ago
- Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species☆186Dec 19, 2024Updated last year
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- ☆12Jun 12, 2023Updated 2 years ago
- An R package for comparative transcriptomic analyses of hybrids and their progenitors☆15Sep 5, 2024Updated last year
- Valid and Powerful Machine-Learning-Assisted Genetic Association Studies☆22Jan 2, 2026Updated 2 months ago
- Multi-genome synteny block visualization tool☆55Updated this week
- Likelihood-based Selective Sweep Detection☆41Oct 12, 2023Updated 2 years ago
- PanPA is a tool for building panproteome graphs and aligning sequences back to the graphs.☆19Feb 26, 2026Updated last month
- Python library to identify Identical By State regions☆22Mar 19, 2023Updated 3 years ago
- tomato graph pangenome☆88Dec 13, 2022Updated 3 years ago
- ☆16Jul 29, 2023Updated 2 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting with the flexibility to host WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Cloudways by DigitalOcean.
- Inferring natural selection by comparative population genomic analysis across species☆26Oct 31, 2023Updated 2 years ago
- repository for code used in analysis of open wild wheat consortium☆18Nov 23, 2021Updated 4 years ago
- conserved non-coding sequence☆16Feb 21, 2022Updated 4 years ago
- General tools for genomic analyses.☆388Feb 28, 2025Updated last year
- Centromics: visualing centromeres with multiple omics data☆21Jan 18, 2024Updated 2 years ago
- Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style …☆173Aug 8, 2024Updated last year
- ☆21Dec 13, 2024Updated last year