orthology assignment using phylogenetic and network analyses
☆57May 5, 2026Updated last month
Alternatives and similar repositories for Broccoli
Users that are interested in Broccoli are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- de Bruijn graph cOrrectiOn from graph aLignment☆11Jul 20, 2020Updated 5 years ago
- Bayesian gene tree reconciliation and WGD inference using amalgamated likelihood estimation☆16Apr 29, 2025Updated last year
- MITE Tracker: An accurate approach to identify miniature inverted-repeat transposable elements in large genomes☆20Mar 21, 2024Updated 2 years ago
- ☆81May 2, 2026Updated last month
- BITACORA: A Bioinformatics tool for gene family annotation☆54Dec 10, 2025Updated 6 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Better Alignments with Translated HMMER☆26Jun 4, 2026Updated last week
- STAG: Species Tree from All Genes☆36Dec 10, 2018Updated 7 years ago
- Version 5 of the CAFE phylogenetics software☆170Mar 16, 2026Updated 2 months ago
- Detection and classification selective sweep use domain adaptive model☆10Apr 29, 2024Updated 2 years ago
- A genome-scale, fast, and precise segmental duplications mapping tool☆36Sep 11, 2024Updated last year
- ☆41Jun 8, 2023Updated 3 years ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 5 years ago
- Iterative error correction of long reads☆13Dec 9, 2022Updated 3 years ago
- Amalgamated likelihood estimation (ALE) is a probabilistic approach to exhaustively explore all reconciled gene trees that can be amalgam…☆54May 14, 2025Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Study of TE evolution in a population of genomes☆10Dec 11, 2023Updated 2 years ago
- Analyzing combinations of codon substitution histories☆47Jun 3, 2026Updated last week
- Possvm: find clusters of orthologs in phylogenies using species overlap & MCL☆19Jul 19, 2024Updated last year
- Some useful bioinformatics pipelines for genomics analysis☆14May 25, 2021Updated 5 years ago
- ⛓ Long Interval Nucleotide K-mer Scaffolder☆73Jun 4, 2026Updated last week
- a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies☆86Jun 4, 2026Updated last week
- base-accurate DNA sequence alignments using WFA and mashmap3☆217Mar 20, 2026Updated 2 months ago
- A program to call variants from genome alignment☆83Apr 29, 2025Updated last year
- ☆10Jan 27, 2025Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆26Apr 29, 2024Updated 2 years ago
- Tool (experimental) to compute layout from overlaps with spectral algorithm☆11Nov 28, 2017Updated 8 years ago
- ☆11Apr 20, 2018Updated 8 years ago
- An R package to detect, classify, and visualize genome rearrangements☆15Aug 4, 2020Updated 5 years ago
- De Bruijn graph construction for large k.☆17Aug 31, 2021Updated 4 years ago
- Genome annotation pipeline☆66Jun 25, 2024Updated last year
- FFT cross-correlation based synteny aligner, (re)designed to make full use of parallel computing☆45Dec 21, 2021Updated 4 years ago
- Wrapper script to concatenate, align, and construct phylogenetic trees of BUSCOs☆20Sep 18, 2019Updated 6 years ago
- Phylogenetic orthology inference for comparative genomics☆857Jul 15, 2025Updated 10 months ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Experimental String Graph construction and processing☆26Aug 14, 2023Updated 2 years ago
- ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-orth…☆25Jan 21, 2026Updated 4 months ago
- A comparative genomics workflow using Nextflow, conda, Julia and R☆50Apr 24, 2024Updated 2 years ago
- Analysis of convergence between organismal traits and DNA/protein sequences☆66Apr 17, 2026Updated last month
- PREQUAL: a pre-alignment quality filter for comparative sequence analyses☆34Jun 1, 2022Updated 4 years ago
- Example of SGTK application for E.coli dataset:☆31Jul 13, 2020Updated 5 years ago
- An algorithm for centromere assembly using long error-prone reads☆25May 25, 2021Updated 5 years ago