caixu0518 / ITIPsLinks
Identification of transposable element insertion polymorphisms (TIPs) based on a pan-genome and large-scale resequencing data
☆13Updated 3 years ago
Alternatives and similar repositories for ITIPs
Users that are interested in ITIPs are comparing it to the libraries listed below
Sorting:
- The GitHub repository for the A. thaliana pan-NLR'ome project.☆18Updated 6 years ago
- scripts for the project of seven thaliana genomes assembly☆42Updated 4 years ago
- Pan-genome Construction and Population Structure Variation Calling pipeline☆45Updated last year
- ☆27Updated 2 years ago
- ☆16Updated last year
- ☆21Updated last year
- A pipeline for genomic variant detection with genome assemblies at population scale☆34Updated 7 months ago
- We developed GenomeSyn as a new tool for constructing and visualizing genome synteny, its novel design and implementation can serve as a …☆31Updated 4 years ago
- ☆29Updated 2 years ago
- ☆14Updated 3 years ago
- A shiny application to visualize MCscan result☆38Updated 3 years ago
- Yet another Hi-C scaffolding tool☆22Updated last year
- This repository contains relevant code and explanation for ”Leveraging a phased pangenome to design ideal haplotypes for hybrid potato br…☆33Updated 2 months ago
- R package to draw syntenic plots in 3 different styles☆42Updated 4 months ago
- This is used to achieve haplotype-resolved assembly of tetraploid genomes using gamete sequencings☆12Updated 4 years ago
- A genome assembly assessment pipeline.☆37Updated 2 years ago
- VCF2Dis: an ultra-fast and efficient tool to calculate pairwise genetic distance and construct population phylogeny from VCF files☆51Updated 4 months ago
- Study of TE evolution in a population of genomes☆10Updated 2 years ago
- PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files☆27Updated last year
- A haplotype analysis toolkit for natural variation study.☆31Updated 2 years ago
- Genome alignment and synteny plots☆33Updated 2 years ago
- ☆16Updated 2 years ago
- Easily construct the ML species tree with single-copy gene shared by different species.☆27Updated 7 years ago
- Split-read pipeline for the identification of non-reference TE insertions with TSDs☆25Updated 5 years ago
- Scripts of population genomics analysis☆36Updated 7 years ago
- Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.☆29Updated 7 years ago
- A tool for quick and accurate calculation of syntenic diversity.☆42Updated 3 months ago
- The code used in the manuscript titled "Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants".☆29Updated 4 years ago
- reference-free estimation of ploidy level from whole genome sequencing data based on de Bruijn graph☆18Updated 2 years ago
- Centromics: visualing centromeres with multiple omics data☆25Updated 10 months ago