phasegenomics / juicebox_scriptsLinks
A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats
☆69Updated 4 years ago
Alternatives and similar repositories for juicebox_scripts
Users that are interested in juicebox_scripts are comparing it to the libraries listed below
Sorting:
- A program to call variants from genome alignment☆81Updated 7 months ago
- use long sequenced reads to close gaps in assemblies☆39Updated 7 years ago
- Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com…☆35Updated last year
- A parallel wrapper for LTR_FINDER☆55Updated 8 months ago
- A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files☆35Updated 3 years ago
- A fast tool for detecting and decomposing segmental duplications in genome assemblies☆54Updated 4 months ago
- ☆41Updated 2 years ago
- ☆45Updated 8 years ago
- A shiny application to visualize MCscan result☆37Updated 3 years ago
- ☆40Updated 4 months ago
- ☆42Updated last year
- C-Phasing/CPhasing: Phasing and scaffolding polyploid genomes based on Pore-C, HiFi-C/CiFi or Hi-C.☆75Updated 2 weeks ago
- An accurate and widely applicable pangenome graph-based variant genotyper for diploid and polyploid genomes☆42Updated 2 months ago
- BITACORA: A Bioinformatics tool for gene family annotation☆49Updated 6 months ago
- a Semi-automated pipeline for assembling T2T genome☆24Updated last month
- RepeatIdentifier☆71Updated 8 months ago
- AlleleFinder is a tool for identifying allele genes from polyploid genome.☆35Updated this week
- HiCAT new project☆29Updated 6 months ago
- DNA序列比对结果 可视化展示工具☆56Updated 2 years ago
- A quick user guide for de novo transposable element (TE) library generation and TE screening. Utilising; the Extensive de novo TE Annotat…☆27Updated 3 years ago
- ☆31Updated 11 months ago
- Chromosome-scale and haplotype-resolved assmebly of tetraploid cultiavetd potato with polyploidy graph binning☆28Updated last year
- Portable solution to generate genome alignment chains using lastz☆59Updated 2 months ago
- Plant genome assembly and annotation pipeline using snakemake☆48Updated 6 months ago
- Genome Annotation Pipeline☆42Updated last year
- Accompanying repository for our publications on manual curation methods for Transposable Elements.☆21Updated last year
- Neural network classification of TE☆96Updated last month
- scripts for the project of seven thaliana genomes assembly☆42Updated 4 years ago
- A organelle de novo genome assembly toolkit☆70Updated 9 months ago
- Pan-genome Construction and Population Structure Variation Calling pipeline☆44Updated last year