GitHub topics: polyploid
gabrielgesteira/QTLpoly Fork of guilherme-pereira/QTLpoly
R package for random-effect multiple QTL mapping in autopolyploids
Language: R - Size: 84.2 MB - Last synced at: 25 days ago - Pushed at: 25 days ago - Stars: 6 - Forks: 4
Sh1ne111/KMERIA
A KMER-based genome-wIde Assocation testing approach on polyploids
Language: C - Size: 16.7 MB - Last synced at: 26 days ago - Pushed at: 26 days ago - Stars: 21 - Forks: 1
jeffersonfparil/poolgen
Quantitative and population genetics analyses of populations, pools, half-sib/full-sib families, and polyploids
Language: Rust - Size: 35.9 MB - Last synced at: 2 days ago - Pushed at: 28 days ago - Stars: 4 - Forks: 1
NIB-SI/syntelogfinder
Nextflow pipeline to find syntelogous genes in phased genome assemblies of polyploid plants
Language: Jupyter Notebook - Size: 61.3 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0
OmarOakheart/nPhase
Ploidy agnostic phasing pipeline and algorithm
Language: Python - Size: 50.5 MB - Last synced at: 16 days ago - Pushed at: over 1 year ago - Stars: 46 - Forks: 5
wangyibin/CPhasing
C-Phasing/CPhasing: Phasing and scaffolding polyploid genomes based on Pore-C, HiFi-C/CiFi or Hi-C.
Language: Python - Size: 70.5 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 37 - Forks: 4
alicefornasiero/IOMAP-3
This repository contains the main codes used in the manuscript: "Oryza genome evolution through a tetraploid lens"
Language: Shell - Size: 75.2 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0
mmollina/MAPpoly
Genetic maps in autopolyploids
Language: R - Size: 382 MB - Last synced at: 22 days ago - Pushed at: 4 months ago - Stars: 29 - Forks: 9
tanghaibao/allhic
Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
Language: Jupyter Notebook - Size: 30 MB - Last synced at: 4 months ago - Pushed at: 8 months ago - Stars: 60 - Forks: 14
edgardomortiz/vcf2phylip
Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
Language: Python - Size: 136 KB - Last synced at: almost 2 years ago - Pushed at: about 2 years ago - Stars: 232 - Forks: 80
plantarum/flowPloidy-old
This repo is deprecated. Use https://github.com/plantarum/flowPloidy instead!
Language: R - Size: 13.5 MB - Last synced at: about 2 years ago - Pushed at: about 8 years ago - Stars: 2 - Forks: 0
tanghaibao/mcscan 📦
Command-line program to wrap dagchainer and combine pairwise results into multi-alignments in column format
Language: C++ - Size: 27.9 MB - Last synced at: 7 months ago - Pushed at: almost 15 years ago - Stars: 21 - Forks: 13
wangyibin/collapse_rescue
Method for rescuing collapsed contigs.
Language: Python - Size: 10.7 KB - Last synced at: over 2 years ago - Pushed at: about 3 years ago - Stars: 1 - Forks: 0
ammodramus/tsmc
triploid SMC inference method
Language: C - Size: 3.39 MB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 1
mmollina/B2721_map
This repository hosts codes and analytic procedures for the article "The recombination landscape and multiple QTL mapping in a Solanum tuberosum cv. ‘Atlantic’-derived F1 population" by Pereira et al. (2020)
Language: R - Size: 36.8 MB - Last synced at: over 2 years ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 0
pblischak/fluidigm2purc
Automated processing and haplotype inference for double-barcoded PCR amplicons
Language: Python - Size: 474 KB - Last synced at: 4 months ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0
DomBennett/Project-cluster
:hibiscus: Short pipeline for counting number of clusters across .sam files
Language: Python - Size: 19.5 KB - Last synced at: 2 months ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 0
k8hertweck/Callisia
Preliminary mapping and SDM
Language: HTML - Size: 5.28 MB - Last synced at: 6 days ago - Pushed at: almost 8 years ago - Stars: 0 - Forks: 0
