diriano / ploidyNGSView external linksLinks
Explore ploidy levels from NGS data alone
☆44Jan 19, 2023Updated 3 years ago
Alternatives and similar repositories for ploidyNGS
Users that are interested in ploidyNGS are comparing it to the libraries listed below
Sorting:
- A statistical framework for ploidy estimation using NGS short-read data☆62Apr 5, 2018Updated 7 years ago
- reference-free estimation of ploidy level from whole genome sequencing data based on de Bruijn graph☆18Jul 26, 2023Updated 2 years ago
- ABLE - Approximate Blockwise Likelihood Estimation☆17Jul 4, 2018Updated 7 years ago
- a tool to identify species and inter-species hybrids and chromosome copy number variants from short-read data☆19Sep 13, 2019Updated 6 years ago
- The final version 2 release of our software to detect core genes in eukaryotic genomes☆29Mar 31, 2015Updated 10 years ago
- Source code for the program MavericK, described fully at www.bobverity.com/maverick☆12Jun 21, 2018Updated 7 years ago
- PSMC-based Migration and Split Time Inference (MiSTI) from two genomes☆11Oct 8, 2025Updated 4 months ago
- kmerfreq count K-mer (with size K) frequency from the input sequence data, typically sequencing reads data, and refe rence genome data is…☆21Mar 30, 2020Updated 5 years ago
- Estimation of per-individual inbreeding coefficients under a probabilistic framework☆21Aug 8, 2023Updated 2 years ago
- A set of tools for modelling ancestry patterns along the genome.☆23Jan 22, 2026Updated 3 weeks ago
- Tool for assessing/improving assembly quality in extra-long tandem repeats☆47Feb 23, 2021Updated 4 years ago
- Scaffolding with assembly likelihood optimization☆21Dec 14, 2020Updated 5 years ago
- Pipeline to perform the allele-specific expression analysis (based on the work by Skelly et al. 2011)☆12May 22, 2025Updated 8 months ago
- Iterative error correction of long reads☆13Dec 9, 2022Updated 3 years ago
- Simulation of Epistasis Local adaptation, with Ancestry and Mate choice☆11Apr 22, 2023Updated 2 years ago
- A software for gap filling in genome assemblies☆10Aug 12, 2022Updated 3 years ago
- SaffronTree: Reference free rapid phylogenetic tree construction from raw read data☆25Jun 11, 2020Updated 5 years ago
- Code and Tutorials for Running the MArginal ePIstasis Test (MAPIT)☆19Nov 29, 2022Updated 3 years ago
- finshingTool☆54Nov 22, 2016Updated 9 years ago
- This tool is for users to upgrade their metagenomics assemblies using long reads. This includes fixing mis-assemblies and scaffolding/gap…☆13Mar 17, 2016Updated 9 years ago
- Tools for F1 hybrid PSMC (hPSMC) divergence time inference from whole genomes☆14May 29, 2024Updated last year
- GeneMark-ETP: gene finding in eukaryotic genomes supported by transcriptome sequencing and protein homology☆27Apr 11, 2025Updated 10 months ago
- Heuristic, parsimony-based ancestral recombination graph inference☆17Aug 25, 2021Updated 4 years ago
- Utilities for analyzing next generation sequencing data.☆15May 7, 2021Updated 4 years ago
- A tool for estimating time-dependent migration rates based on cross-/within-population coalescent rates from MSMC☆16Apr 6, 2025Updated 10 months ago
- Analyze and simulate Pool-Seq time series data☆17Jun 16, 2022Updated 3 years ago
- ☆24Jun 9, 2017Updated 8 years ago
- Scripts to reproduce TrioBinning manuscript☆17Mar 31, 2020Updated 5 years ago
- command-line tools for the management of genotype likelihoods and allele counts☆30Feb 12, 2024Updated 2 years ago
- A comparative genomics workflow using Nextflow, conda, Julia and R☆49Apr 24, 2024Updated last year
- Tools for inference of the DFE with dadi☆14Apr 16, 2021Updated 4 years ago
- SNP genotyping in polyploids☆17Aug 12, 2020Updated 5 years ago
- Automated optimisation of de-novo transcriptome assembly☆25Nov 11, 2015Updated 10 years ago
- parallelized blat with multi-threads support☆55Jan 23, 2025Updated last year
- Quantifying Introgression via Branch Lengths☆56Sep 30, 2022Updated 3 years ago
- Reference bias measuring toolkit☆20Apr 18, 2025Updated 9 months ago
- ☆21Jan 11, 2024Updated 2 years ago
- Implementation of a polymorphism aware phylogenetic model using HYPHY☆19Jan 14, 2022Updated 4 years ago
- A tool to calculate ploidy levels from genotype likelihoods and coverage using Hidden Markov Models☆18Nov 29, 2022Updated 3 years ago