Few scripts facilitating the extraction of info from Repeat Masker .out files
☆84May 25, 2021Updated 4 years ago
Alternatives and similar repositories for Parsing-RepeatMasker-Outputs
Users that are interested in Parsing-RepeatMasker-Outputs are comparing it to the libraries listed below
Sorting:
- A tool for discovering transposable elements and describing patterns of genome evolution☆31Apr 23, 2023Updated 2 years ago
- Script to help assessing the evolutionary history of a TE family☆16Sep 5, 2019Updated 6 years ago
- Neural network classification of TE☆97Oct 9, 2025Updated 4 months ago
- meta-pipeline for repetitive element de-fragmentation and annotation☆28Oct 1, 2020Updated 5 years ago
- Earl Grey: A fully automated TE curation and annotation pipeline☆194Feb 24, 2026Updated last week
- 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
- Distribution of TEs and their relationship to genes in host genome☆24Jun 20, 2023Updated 2 years ago
- Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.☆29Sep 5, 2019Updated 6 years ago
- Convert RepeatMasker ".out" file into a gff3 with colors!!!☆24Aug 20, 2020Updated 5 years ago
- R package to draw syntenic plots in 3 different styles☆45Feb 2, 2026Updated last month
- ☆41Jun 8, 2023Updated 2 years ago
- Genome alignment and synteny plots☆33Jun 5, 2023Updated 2 years ago
- SINE annotation tool for plant genomes☆18Jan 21, 2024Updated 2 years ago
- Accompanying repository for our publications on manual curation methods for Transposable Elements.☆21Jun 26, 2024Updated last year
- A loose collection of scripts and utilities for processing and analyzing the Goat reference genome assembly☆11Feb 28, 2017Updated 9 years ago
- LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in genome sequences.☆51Jan 16, 2024Updated 2 years ago
- A shiny application to visualize MCscan result☆38Oct 7, 2022Updated 3 years ago
- Extensive de-novo TE Annotator☆430Updated this week
- Dot: An interactive dot plot viewer for comparative genomics☆35May 4, 2023Updated 2 years ago
- Annotation helper tool for the manual curation of transposable element consensus sequences☆53Mar 5, 2025Updated last year
- Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding☆20Mar 3, 2025Updated last year
- Annotate Olfactory receptor CDS from genome☆10Apr 29, 2023Updated 2 years ago
- Python wrappers for programs that search for transposable elements☆19Jul 12, 2016Updated 9 years ago
- De novo chromosome-level scaffolding and phasing tool using Hi-C☆30Nov 23, 2025Updated 3 months ago
- TEtrimmer: a novel tool to automate manual curation of transposable elements☆111Feb 26, 2026Updated last week
- ☆40Jun 19, 2023Updated 2 years ago
- profile the repeat landscape in a genome☆16Sep 9, 2014Updated 11 years ago
- Generate an interactive dot plot from mummer or minimap alignments☆212Jan 17, 2024Updated 2 years ago
- HELIANO is a software for detection and classification of Helitron-like elements.☆33Jun 10, 2025Updated 8 months ago
- TransposonPSI involves a PSI-blast search of a protein or nucleotide sequence against a set of profiles of proteins corresponding to majo…☆14Apr 28, 2020Updated 5 years ago
- TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes☆106Nov 17, 2025Updated 3 months ago
- Gapless provides combined scaffolding, gap-closing and assembly correction with long reads☆38Mar 5, 2023Updated 3 years ago
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…☆449Oct 20, 2025Updated 4 months ago
- ☆15Aug 6, 2018Updated 7 years ago
- Code for assembly approach presented in "Haplotype-resolved assembly of a tetraploid potato genome using long reads and low-depth offspri…☆14Nov 20, 2023Updated 2 years ago
- ☆15Jun 12, 2020Updated 5 years ago
- scripts to parse and analyse MCScanX collinearity output☆32Mar 3, 2020Updated 6 years ago
- The complete sequence of a Chinese individual☆11Oct 8, 2024Updated last year
- Guided synteny alignment between duplicated genomes (within specified quota constraint)☆59Sep 5, 2017Updated 8 years ago