A tool for discovering transposable elements and describing patterns of genome evolution
☆31Apr 23, 2023Updated 2 years ago
Alternatives and similar repositories for tephra
Users that are interested in tephra are comparing it to the libraries listed below
Sorting:
- De novo annotation of young retrotransposons☆47Apr 12, 2022Updated 3 years ago
- Few scripts facilitating the extraction of info from Repeat Masker .out files☆84May 25, 2021Updated 4 years ago
- scripts used to analyse horizontal transfer and evolution of transposable elements in 307 vertebrate species☆11May 16, 2021Updated 4 years ago
- Modified TIR-Learner for Rice genome☆12Jun 14, 2019Updated 6 years ago
- Domain based annotation of transposable elements☆21Oct 8, 2025Updated 4 months ago
- Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding☆20Mar 3, 2025Updated last year
- A toolkit for annotation of transposable element families from unassembled sequence reads☆31Dec 19, 2025Updated 2 months ago
- ☆15Aug 6, 2018Updated 7 years ago
- CLfinder-OrthNet, a pipeline to encode orthologs from multiple genomes and their evolutionary history into networks (OrthNets) based on c…☆10Jun 9, 2022Updated 3 years ago
- Simple tools for working with Hi-C data☆18Dec 19, 2018Updated 7 years ago
- This toolkit deals with GEnomic sequence and genome structure ANnotation files between inbreeding lines and species.☆45Mar 2, 2023Updated 3 years ago
- ☆13Nov 15, 2017Updated 8 years ago
- Tree reconstruction of ancestry using incomplete lineage sorting☆11Jan 9, 2026Updated last month
- Module to determine where repeats are and make soft-masks of said☆10Mar 14, 2024Updated last year
- dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…☆60Mar 29, 2023Updated 2 years ago
- BUSCOMP: BUSCO Compiler and Comparison tool☆21Sep 19, 2024Updated last year
- Convert RepeatMasker ".out" file into a gff3 with colors!!!☆24Aug 20, 2020Updated 5 years ago
- 🚝RAILS and 👞🔨Cobbler: Assembly Improvement by Long Sequence Scaffolding/Gap-filling☆27Jan 2, 2024Updated 2 years ago
- Estimation of per-individual inbreeding coefficients under a probabilistic framework☆22Aug 8, 2023Updated 2 years ago
- Annotated Genome Optimization Using Transcriptome Information☆20May 31, 2020Updated 5 years ago
- SINE annotation tool for plant genomes☆18Jan 21, 2024Updated 2 years ago
- genEra is a fast and easy-to-use command-line tool that estimates the age of the last common ancestor of protein-coding gene families.☆53Nov 29, 2024Updated last year
- Dot: An interactive dot plot viewer for comparative genomics☆35May 4, 2023Updated 2 years ago
- TEFLoN uses paired-end illumina sequence data to discover and genotype transposable elements present in your samples.☆13Mar 5, 2021Updated 4 years ago
- Ploidy agnostic phasing pipeline and algorithm☆49Jan 3, 2024Updated 2 years ago
- A fully automated gene annotator from RNA-Seq expression data☆61Jul 1, 2023Updated 2 years ago
- Scripts to do haplotype analysis on pan genomes.☆20Sep 24, 2020Updated 5 years ago
- Identification of conserved non-coding sequences in plants☆32Feb 4, 2026Updated 3 weeks ago
- A tool for recovering synteny blocks from multiple alignment☆32Oct 18, 2021Updated 4 years ago
- Code and files used in teaching and training courses.☆31Nov 25, 2016Updated 9 years ago
- Distribution of TEs and their relationship to genes in host genome☆24Jun 20, 2023Updated 2 years ago
- GOMAP-Singularity is the containerized version of GOMAP☆11Jul 16, 2023Updated 2 years ago
- ☆12Jun 12, 2023Updated 2 years ago
- Compare different genome alignment tools using a wide range of genomes with different complexities.☆14Dec 3, 2022Updated 3 years ago
- A program to generate a graph which presents a simplified representation of several full length genomes☆13Aug 23, 2018Updated 7 years ago
- defusion☆14Aug 24, 2021Updated 4 years ago
- SCORPiOs is a synteny-guided gene tree correction pipeline for clades that have undergone a whole-genome duplication event.☆23Sep 23, 2024Updated last year
- Neural network classification of TE☆97Oct 9, 2025Updated 4 months ago
- Genome Annotation Pipeline☆43Aug 20, 2024Updated last year