sjteresi / TE_DensityLinks
Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com/articles/10.1186/s13100-022-00264-4
☆35Updated last year
Alternatives and similar repositories for TE_Density
Users that are interested in TE_Density are comparing it to the libraries listed below
Sorting:
- ☆41Updated 2 years ago
- A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files☆35Updated 3 years ago
- use long sequenced reads to close gaps in assemblies☆39Updated 7 years ago
- a Semi-automated pipeline for assembling T2T genome☆24Updated last month
- ☆21Updated last year
- Plant genome assembly and annotation pipeline using snakemake☆50Updated 6 months ago
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆69Updated 4 years ago
- ☆40Updated 4 months ago
- ☆26Updated 3 years ago
- Centromics: visualing centromeres with multiple omics data☆20Updated last year
- ☆31Updated 11 months ago
- HiCAT new project☆29Updated 6 months ago
- Genome Annotation Pipeline☆42Updated last year
- A personal pipeline to calculate Ka,Ks and Ka/Ks using PAML-yn00 with YN method☆10Updated 9 months ago
- PanTE: A Comprehensive Framework for Transposable Element Discovery in Graph-based Pangenomes☆24Updated last month
- A genome assembly assessment pipeline.☆37Updated 2 years ago
- C-Phasing/CPhasing: Phasing and scaffolding polyploid genomes based on Pore-C, HiFi-C/CiFi or Hi-C.☆75Updated 3 weeks ago
- A shiny application to visualize MCscan result☆37Updated 3 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
- An accurate and widely applicable pangenome graph-based variant genotyper for diploid and polyploid genomes☆43Updated 2 months ago
- An Example of Subgenome Phasing for Complex Allopolyploidy☆13Updated last month
- HELIANO is a software for detection and classification of Helitron-like elements.☆32Updated 6 months ago
- ☆32Updated 8 months ago
- Pan-genome Construction and Population Structure Variation Calling pipeline☆44Updated last year
- Accompanying repository for our publications on manual curation methods for Transposable Elements.☆21Updated last year
- Automated pipeline for running CoalHMM☆13Updated 2 years ago
- Python scripts to run tandem repeat finder program (Benson, 1999) and parse the results☆13Updated 6 years ago
- wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication☆37Updated 10 months ago
- BITACORA: A Bioinformatics tool for gene family annotation☆51Updated this week
- Resistify is a program which rapidly identifies and classifies plant resistance genes from protein sequences. It is designed to be lightw…☆40Updated last week