recombination

kr-colab/ReLERNN

Recombination Landscape Estimation using Recurrent Neural Networks

qmarcou/IGoR

IGoR is a C++ software designed to infer V(D)J recombination related processes from sequencing data. Find full documentation at:

kr-colab/discoal

discoal is a coalescent simulation program capable of simulating models with recombination, selective sweeps, and demographic changes including population splits, admixture events, and ancient samples

kussell-lab/mcorr

Inferring bacterial recombination rates from large-scale sequencing datasets.

solgenomics/SNPbinner

SNPbinner is a utility for the generation of genotype crossover points and binmaps based on SNP data across recombinant inbred lines.

beiko-lab/arete

AMR/VF LGT focused bacterial genomics analysis workflow

brwnj/idplot

compare sequences to a shared root reference sequence.

ktmeaton/ncov-recombinant

Reproducible workflow for SARS-CoV-2 recombinant sequence detection.

kussell-lab/viral-mcorr

Using correlated substitutions to infer recombination rates in RNA viruses

WMD-group/StarryNight

Monte Carlo codes to simulate polar domains in hybrid perovskite solar cells

phac-nml/rebar

REcombination BARcode detector.

PierreBarrat/TreeKnit.jl

TreeKnit is a package that infers Ancestral Reassortment Graphs for segmented genomes (typically, human influenza).

simhag/Compositional-Pre-Training-for-Semantic-Parsing-with-BERT

Implementation of Semantic Parsing with BERT and compositional pre-training on GeoQuery

fanglab/BEAST

Bacterial Epigenomics Analysis SuiTe

phylo42/sherpas

Screening Historical Events of Recombination in a Phylogeny via Ancestral Sequences

mtekman/HaploForge

HTML5 pedigree/haplotype explorer, featuring a rich selection of comparison tools.

yjx1217/RecombineX

A computational framework for tetrad-based genotyping & recombination landscape analysis

pangenome/chromosome_communities

Recombination between heterologous human acrocentric chromosomes

tkchafin/FGTpartitioner

Parsimonious delimitation of large SNP datasets using the four gamete test

GoliczGenomeLab/haploMAGIC

Phasing, haplotype reconstruction and crossover detection with single-nucleotide polymorphism data from multiparental populations.

drostlab/retrocombinator

An R/C++ package for simulating the evolution of retrotransposons over time.

HKyleZhang/RecView

view and locate recombinations positions using pedigree data

alfonsomiguelcruz/pgc_btip_topone

TopONE is a project that studies recombination events using topological data analysis. This was made in the PGC-BTIP 2024 internship by Alfonso Miguel Cruz and Claire Angelie Gabisay, and mentored by C.J. Palpal-latoc.

Ping-Group-UCSC/NonRad

This code computes the nonradiative recombination at defect centers from first-principles

zzsfornlp/znmt-merge

NMT decoding with recombination (merging).

manu-script/recomb_landscape

Codes and Datasets used in the manuscript titled "Systematic Analyses of Autosomal Recombination Rates from the 1000 Genomes Project Uncovers the Global Recombination Landscape in Humans."

alipirani88/find_hgt_pipeline

compare multiple fasta files using nucmer and extract aligned fragments

AnimaTardeb/Meiogenix-UGDR

UGDR: a pipeline to detect and analyze recombination in yeast.

cmkobel/gBGC

🦠💪 Investigating gBGC in Rhizobium leguminosarum

dennishazelett/recombulator

Calculate recombination frequencies and plan for crosses in Drosophila Genetics

FraCose/Recombination_Random_Algos

Cosentino, Oberhauser, Abate - A randomized algorithm to reduce the support of discrete measures

MafaldaSFerreira/Atlherr_inversion_evol

Evolutionary genomics of chromosomal inversions in Atlantic herring

scikal/LD-CHASE

A tool for linkage disequilibrium-informed comparison of haplotypes among sibling embryos.

lightning-auriga/interpolate-genetic-position

Use reference genetic map to interpolate genetic position for a query set of variants

mbursell/ReLERNN-pipeline