A reimplementation of a classical PSMC method in python for educational purposes
☆17Jul 22, 2024Updated last year
Alternatives and similar repositories for psmc-python
Users that are interested in psmc-python are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Tools for F1 hybrid PSMC (hPSMC) divergence time inference from whole genomes☆15May 29, 2024Updated 2 years ago
- A toolking for cell type hierarchies: marker selection & consistent classification☆22Nov 26, 2023Updated 2 years ago
- Code for the "Spatial genomics maps the structure, nature and evolution of cancer clones" paper☆27Nov 21, 2022Updated 3 years ago
- ☆21Jan 11, 2024Updated 2 years ago
- Accelerated Bayesian inference of population size history from whole genome data.☆36Apr 6, 2026Updated 2 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- A tool for estimating time-dependent migration rates based on cross-/within-population coalescent rates from MSMC☆16Apr 6, 2025Updated last year
- Ascertained Sequentially Markovian Coalescent☆18Oct 22, 2025Updated 7 months ago
- Materials for the INF 515: Comparative Genomics course at NAU taught by Prof. Marc Tollis☆13Apr 3, 2025Updated last year
- Sampling and inference of genealogies with recombination☆56Apr 10, 2026Updated last month
- Rust package for constructing and analyzing phylogenies. (unpolished & unmaintained)☆15May 1, 2025Updated last year
- A hidden Markov model for detecting segments of shared ancestry (identity by descent)☆12Dec 15, 2023Updated 2 years ago
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- (Greetings_here_is_yet_another) Rate of Adaptive Protein Evolution Software☆10Jul 19, 2024Updated last year
- A python framework for inferring demography from tracts of identity by state as reported in PLoS Genetics by Harris and Nielsen (2013)☆15Aug 1, 2013Updated 12 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Snakemake module for the snpArcher pipeline for population size change inference.☆10Nov 12, 2024Updated last year
- The GitHub for CLUES2, a method for inferring and evaluating evidence for selection.☆20Apr 9, 2025Updated last year
- Drawing functions for Demes demographic models☆25Updated this week
- Infer demographic history with the Moran model☆51Jun 14, 2025Updated 11 months ago
- a precise pangenome browser combining linear and graph-based pan-genome☆13Jul 16, 2024Updated last year
- Fast and flexible inference of the distribution of fitness effects (DFE), VCF-SFS parsing with ancestral allele and site-degeneracy annot…☆16May 31, 2026Updated last week
- Genotyping lots of samples with big pangenomes☆11Oct 30, 2025Updated 7 months ago
- Everything but the kitchen sink☆13Feb 6, 2025Updated last year
- Integrating long read sequencing enhances short read-based locus-specific transposable element quantification☆11May 12, 2025Updated last year
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- HiFi error modeler and simulator with ploidy☆12Feb 12, 2026Updated 3 months ago
- cobraa (coalescent based reconstruction of ancient admixture): a hidden Markov model to infer ghost admixture using just a diploid sequen…☆23Jun 17, 2025Updated 11 months ago
- Compares pangenome graphs by calculating the segmentation distance between two GFA (Graphical Fragment Assembly) files.☆13Apr 28, 2026Updated last month
- ☆13Sep 11, 2025Updated 8 months ago
- HitSV: Maximizing discovery of structural variants across sequencing technologies☆26Apr 9, 2026Updated 2 months ago
- lace up GFA files using panSN path name sub-ranges to coordinate the lacing☆14Jul 30, 2025Updated 10 months ago
- Bayesian reconstruction of ancient DNA fragments☆30Aug 6, 2024Updated last year
- A toolkit for exploring regions of variation in pangenomes☆14May 19, 2026Updated 2 weeks ago
- ☆70Dec 5, 2022Updated 3 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- PG-SCUnK mesure quality of Pan-Genome Graphs using Single Copy and Universal k-mers☆23Feb 16, 2026Updated 3 months ago
- R Port of psmc☆17Mar 16, 2023Updated 3 years ago
- Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model☆191Nov 17, 2025Updated 6 months ago
- Whole genome visualization and comparative genomics in R☆22Feb 18, 2025Updated last year
- SMC++ infers population history from whole-genome sequence data.☆176Jan 20, 2024Updated 2 years ago
- Genome Assembly Validation via Inter-SUNK distances in ONT reads☆15Feb 20, 2023Updated 3 years ago
- Genealogical Estimation of Variant Age (GEVA)☆33Sep 30, 2021Updated 4 years ago