tskit-dev / tsdate
Infer the age of ancestral nodes in a tree sequence.
☆21Updated 2 weeks ago
Alternatives and similar repositories for tsdate:
Users that are interested in tsdate are comparing it to the libraries listed below
- Sampling and manipulating genome-wide ancestral recombination graphs (ARGs)☆13Updated last year
- Sampling and inference of genealogies with recombination☆30Updated 6 months ago
- Phase reads, assemble haplotypes and detect SVs☆19Updated 4 years ago
- Ascertained Sequentially Markovian Coalescent☆16Updated 4 months ago
- A derivative of GenomeScope2.0 modified to work with FastK☆9Updated last year
- A module for improving the insertion sequences of structural variant calls☆30Updated 3 years ago
- Versatile tool for detecting selective sweeps with a variety of ages, strengths, starting allele frequencies, and completeness.☆14Updated last year
- Minimizer-based assembly scaffolding and mapping using long reads☆38Updated 6 months ago
- Work for the tree sequence inference paper.☆23Updated 4 years ago
- transposable element typing pipeline☆17Updated last year
- Long read aligner for cyclic and acyclic pangenome graphs☆36Updated last year
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆24Updated 11 months ago
- Genome-wide scan for balancing selection using beta statistic☆29Updated last year
- A reimplementation of a classical PSMC method in python for educational purposes☆15Updated 8 months ago
- Method to optimally select samples for validation and resequencing☆27Updated 4 years ago
- use variant nesting information to flter overlapping sites from vg deconstruct output☆26Updated 9 months ago
- The MafFilter genome alignment processor☆17Updated 3 weeks ago
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Updated 2 years ago
- ☆14Updated last year
- machine learning applications for dadi☆15Updated 2 months ago
- ☆32Updated 2 years ago
- The Vertebrate Genomes Project Mitogenome Assembly Pipeline☆18Updated 2 years ago
- Kmer based genotyper for short reads.☆23Updated 3 years ago
- Convert HAL to VG☆22Updated 8 months ago
- Phasing reads with secondary alignments☆17Updated 4 months ago
- CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies☆24Updated 5 years ago
- Benchmark structural variant calls against a reference set☆17Updated 5 months ago
- ☆18Updated last month
- Standalone tool and library allowing to work with barcoded linked-reads☆12Updated 4 months ago
- Scaffolding with assembly likelihood optimization☆21Updated 4 years ago