PalamaraLab / ASMC
Ascertained Sequentially Markovian Coalescent
☆15Updated 4 months ago
Alternatives and similar repositories for ASMC:
Users that are interested in ASMC are comparing it to the libraries listed below
- This is used to achieve haplotype-resolved assembly of tetraploid genomes using gamete sequencings☆12Updated 3 years ago
- ☆13Updated 11 months ago
- Phase reads, assemble haplotypes and detect SVs☆19Updated 4 years ago
- building a human pangenome from the HPRCy1v2 genbank accessioned assemblies☆14Updated 2 years 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
- Versatile tool for detecting selective sweeps with a variety of ages, strengths, starting allele frequencies, and completeness.☆14Updated last year
- Method to optimally select samples for validation and resequencing☆27Updated 3 years ago
- Scripts to do haplotype analysis on pan genomes.☆21Updated 4 years ago
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆24Updated 10 months ago
- Genome-wide scan for balancing selection using beta statistic☆28Updated last year
- Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.☆11Updated 4 months ago
- De-novo Assembly Structural Variant Caller☆13Updated 8 years ago
- Infer the age of ancestral nodes in a tree sequence.☆20Updated last week
- Benchmarking variant calling in polyploids☆13Updated 3 years ago
- use variant nesting information to flter overlapping sites from vg deconstruct output☆26Updated 9 months ago
- pangenome analyses for complete genomes of great apes (and gibbon)☆17Updated 5 months ago
- Phasing reads with secondary alignments☆17Updated 3 months ago
- A program to generate a graph which presents a simplified representation of several full length genomes☆12Updated 6 years ago
- Code and Tutorials for Running the MArginal ePIstasis Test (MAPIT)☆14Updated 2 years ago
- Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.☆29Updated 7 years ago
- Benchmark structural variant calls against a reference set☆17Updated 5 months ago
- Kmer based genotyper for short reads.☆23Updated 3 years ago
- R-package: Calculation of haplotype blocks and libraries☆30Updated last month
- Identification of segmental duplications in the genome☆26Updated 3 years ago
- FastSMC is a method to quickly and accurately estimate pairwise identical-by-descent (IBD) regions in the genome. FastSMC estimates the a…☆14Updated 3 years ago
- Standalone tool and library allowing to work with barcoded linked-reads☆12Updated 3 months ago
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆29Updated 3 months ago
- Convert HAL to VG☆22Updated 7 months ago
- ☆20Updated last year
- Functions to compare a SV call sets against a truth set.☆29Updated 10 months ago