phasegenomics / juicebox_scripts
A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats
☆65Updated 3 years ago
Alternatives and similar repositories for juicebox_scripts:
Users that are interested in juicebox_scripts are comparing it to the libraries listed below
- ☆39Updated last year
- A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files☆33Updated 2 years ago
- use long sequenced reads to close gaps in assemblies☆37Updated 6 years ago
- A shiny application to visualize MCscan result☆36Updated 2 years ago
- Identification of errors in draft genome assemblies with single-base pair resolution for quality assessment and improvement☆58Updated 2 months ago
- Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com…☆31Updated 6 months ago
- A fast tool for detecting and decomposing segmental duplications in genome assemblies☆47Updated last year
- ☆29Updated 3 months ago
- Genome Annotation Pipeline☆35Updated 7 months ago
- ☆43Updated 8 years ago
- ☆77Updated last month
- Pan-genome Construction and Population Structure Variation Calling pipeline☆38Updated 6 months ago
- LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in genome sequences.☆44Updated last year
- wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication☆33Updated last month
- A tool for evaluate long-read de novo assembly results☆44Updated 7 months ago
- Plant genome assembly and annotation pipeline using snakemake☆42Updated last year
- dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…☆54Updated 2 years ago
- This is a method to find telomeres and centromeres in plants.☆40Updated last year
- BITACORA: A Bioinformatics tool for gene family annotation☆43Updated 11 months ago
- scripts for the project of seven thaliana genomes assembly☆38Updated 3 years ago
- ☆29Updated 7 months ago
- A program to call variants from genome alignment☆79Updated last year
- A genome assembly assessment pipeline.☆37Updated last year
- TSEBRA: Transcript Selector for BRAKER☆47Updated 4 months ago
- HiCAT new project☆27Updated last year
- Python wrappers for programs that search for transposable elements☆19Updated 8 years ago
- A rapid and accurate ensemble pipeline for graph-based variant genotyping with lower depth of short reads☆37Updated 9 months ago
- ☆24Updated 3 years ago
- TGS scaffolding☆46Updated 3 years ago
- Neural network classification of TE☆87Updated 2 years ago