A script that parses the OrthoFinder output and keeps only the orthogroups that meet specific criteria
☆19Oct 14, 2020Updated 5 years ago
Alternatives and similar repositories for OGFilter
Users that are interested in OGFilter are comparing it to the libraries listed below
Sorting:
- A quick user guide for de novo transposable element (TE) library generation and TE screening. Utilising; the Extensive de novo TE Annotat…☆27Dec 7, 2022Updated 3 years ago
- Nucmer from Mummer3 followed by ggplot for nicer and more customisable genome alignment plots.☆11Feb 25, 2021Updated 5 years ago
- parallelLastz: Running Lastz in parallel☆17Sep 13, 2024Updated last year
- Tools to process OrthoFinder output: Calculate the most common gene name of an orthogroup by majority vote and create plots analogous to …☆19Jan 14, 2026Updated last month
- Wrapper script to concatenate, align, and construct phylogenetic trees of BUSCOs☆20Sep 18, 2019Updated 6 years ago
- ☆22Jun 8, 2022Updated 3 years ago
- SINE annotation tool for plant genomes☆18Jan 21, 2024Updated 2 years ago
- ☆14Oct 27, 2025Updated 4 months ago
- ☆16Jan 14, 2026Updated last month
- Implementation of ToL genome assembly workflows☆26Feb 12, 2026Updated 2 weeks ago
- ☆10Jun 9, 2025Updated 8 months ago
- Tutorial for using MCMCTree as implemented by Brown Lab at SIUC. For divergence time estimation on UCE datasets, for dendrobatid frogs.☆10Jun 19, 2020Updated 5 years ago
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12May 22, 2024Updated last year
- Newick tree processing☆13Feb 22, 2026Updated last week
- ☆13Nov 15, 2017Updated 8 years ago
- GeneMiner: a tool for extracting phylogenetic markers from next-generation sequencing data☆12Feb 22, 2024Updated 2 years ago
- This is a phylogeny workflow for batch submission to HPC cluster built with Slurm queue manager☆10Mar 19, 2024Updated last year
- A method for measuring chromosome-specific telomere length from long reads☆22May 20, 2024Updated last year
- Genome alignment and synteny plots☆33Jun 5, 2023Updated 2 years ago
- ☆26Updated this week
- BUSCO Phylogenomics | Utility script to construct species phylogenies using BUSCO proteins☆94Jan 24, 2026Updated last month
- Analyses pipelines that I use for my work☆12Jul 7, 2021Updated 4 years ago
- Taxonomy classification of viral sequences / contigs☆12Jul 15, 2025Updated 7 months ago
- ☆12Jun 7, 2024Updated last year
- A long-read SV calling pipeline☆12Aug 13, 2021Updated 4 years ago
- Chromosome-level synteny plotting using orthologous regions☆31Sep 19, 2024Updated last year
- R package for comparison of synteny conservation at the genome-wide scale.☆14Jun 6, 2024Updated last year
- Some components that speed up and reduce resource cost for original ALLHiC☆14Jun 21, 2025Updated 8 months ago
- ☆15Jan 28, 2026Updated last month
- Support material for the "Comparative Genomics Laboratory" classes of the MSc in Biodiversity and Evolution at the University of Bologna.☆13Jan 13, 2026Updated last month
- ☆17Feb 11, 2026Updated 2 weeks ago
- The codes to assemble two sorghum cultivars☆10May 11, 2024Updated last year
- use paired-end transcriptome reads to scaffold genomes☆11May 30, 2019Updated 6 years ago
- MP-EST estimates species trees from a set of gene trees by maximizing a pseudo-likelihood function☆12Oct 31, 2025Updated 4 months ago
- Gennome annotation scripts for the crickets Gryllus bimaculatus and Laupala kohalensis.☆13Feb 28, 2022Updated 4 years ago
- We developed GenomeSyn as a new tool for constructing and visualizing genome synteny, its novel design and implementation can serve as a …☆32Jan 3, 2022Updated 4 years ago
- Taxon-aware analysis of clustered protein sequences☆31Jul 1, 2024Updated last year
- a fork of the gap-closing pipeline PBJelly☆15Jan 7, 2019Updated 7 years ago
- Python scripts to run tandem repeat finder program (Benson, 1999) and parse the results☆13Mar 11, 2019Updated 6 years ago