pdimens / harpy
Process raw haplotagging data, from raw sequences to phased haplotypes, batteries included.
☆15Updated this week
Alternatives and similar repositories for harpy:
Users that are interested in harpy are comparing it to the libraries listed below
- CoalHMM☆22Updated 11 years ago
- Minimizer-based assembly scaffolding and mapping using long reads☆35Updated 3 months ago
- ☆20Updated 5 months ago
- A pipeline to use Lep-Map3 to create linkage maps and LepAnchor for anchoring and orienting genome assemblies with said linkage maps.☆11Updated 11 months ago
- Tetemer, an R package and Shiny app for interactively fitting population parameters to k-mer spectra of diploids, triploids, and tetraplo…☆13Updated 5 months ago
- Code and binaries related to processing haplotagging data☆13Updated 2 years ago
- Standalone tool and library allowing to work with barcoded linked-reads☆12Updated last month
- ✏️ Genome assembly polishing & SNV detection☆64Updated last month
- Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.☆29Updated 6 years ago
- Biodiversity Genomics Academy 2023: Understanding k-mers and ploidy using Smudgeplot☆10Updated last year
- A jupyter notebook tutorial for making high-quality barplot figures from population structure analyses (Admixture, Structure) with Python…☆14Updated 9 months ago
- RPHAST: Phylogenetic Analysis with Space/Time Models in R☆10Updated 2 months ago
- Sampling and inference of genealogies with recombination☆29Updated 4 months ago
- A genome-wide IM blockwise likelihood estimation toolkit☆15Updated 7 months ago
- Script to help assessing the evolutionary history of a TE family☆15Updated 5 years ago
- Software for detecting introgression using supervised machine learning☆18Updated 2 years ago
- ☆19Updated 3 months ago
- TEFLoN uses paired-end illumina sequence data to discover and genotype transposable elements present in your samples.☆13Updated 3 years ago
- A tool to calculate ploidy levels from genotype likelihoods and coverage using Hidden Markov Models☆17Updated 2 years ago
- MCHelper: An automatic tool to curate transposable element libraries☆32Updated last month
- PREQUAL: a pre-alignment quality filter for comparative sequence analyses☆31Updated 2 years ago
- The stairway plot is a method for inferring detailed population demographic history using the site frequency spectrum (SFS) from DNA sequ…☆38Updated last year
- a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees☆25Updated last month
- Integrate multiple genome assemblies into a pangenome graph☆32Updated 2 years ago
- Estimating repeat spectra and genome length from low-coverage genome skims☆11Updated last year
- ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-orth…☆16Updated 7 months ago
- A Plant Presence/absence Variants Scanner and Pan-genome Construction Pipeline☆26Updated 3 years ago
- building a human pangenome from the HPRCy1v2 genbank accessioned assemblies☆14Updated last year
- Perl script for manipulating multiple sequence alignments for phylogenetic reconstruction☆10Updated 10 years ago