almeidasilvaf / cogeqcView external linksLinks
An R package to perform systematic quality checks on comparative genomics analyses
☆12Jan 12, 2024Updated 2 years ago
Alternatives and similar repositories for cogeqc
Users that are interested in cogeqc are comparing it to the libraries listed below
Sorting:
- A Swiss-Army-Knife for Bioinformaticians☆14Jan 27, 2026Updated 3 weeks ago
- Genome-wide gene gain/loss mapping tool using DTL(Duplication-Transfer-Loss) reconciliation method☆17Dec 29, 2022Updated 3 years ago
- An R package to infer and analyze synteny networks from protein sequences☆36Jul 23, 2025Updated 6 months ago
- Gene Family Annotation Workflow☆11Mar 26, 2024Updated last year
- ☆24Apr 22, 2025Updated 9 months ago
- ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-orth…☆21Jan 21, 2026Updated 3 weeks ago
- PhyloForge: Unifying micro and macro evolution with comprehensive genomic signals☆10May 17, 2024Updated last year
- ☆16Jan 14, 2026Updated last month
- This pipeline is used to distinguish allotetraploid subgenomes.☆11Apr 8, 2024Updated last year
- This is a method to find telomeres and centromeres in plants.☆42Jun 17, 2023Updated 2 years ago
- Distribution of TEs and their relationship to genes in host genome☆24Jun 20, 2023Updated 2 years ago
- Feature Aggregate Depth Utility☆12Aug 20, 2024Updated last year
- Calculate the dn/ds (also pn and ps) value of cds☆13Jul 11, 2020Updated 5 years ago
- ☆12Updated this week
- Tree reconstruction of ancestry using incomplete lineage sorting☆11Jan 9, 2026Updated last month
- Estimating gene family turnover rates by likelihood-based methods☆12Aug 17, 2020Updated 5 years ago
- ☆12Dec 4, 2025Updated 2 months ago
- Annotation of cryptic transposon variants using Hidden Markov Models to detect conserved terminal features.☆10Jan 27, 2026Updated 3 weeks ago
- ☆16Nov 19, 2025Updated 2 months ago
- ☆10May 22, 2025Updated 8 months ago
- Inpactor2: LTR retrotransposon detector and classificator using Deep Learning☆28Jun 17, 2025Updated 8 months ago
- read and analyse RepeatMasker output☆27May 22, 2023Updated 2 years ago
- A tool for evaluating long-read de novo assembly results☆52Aug 25, 2024Updated last year
- Detecting transposable element invasions without repeat library. Detects also horizontal transfer events and endogenized viruses. All you…☆17Nov 25, 2024Updated last year
- A tool for motif annotation and visualization in tandem repeats.☆11May 26, 2025Updated 8 months ago
- Comparative Metatranscriptomics Workflow☆10Jul 9, 2020Updated 5 years ago
- An assembly workflow for analysing data in the Earth Biogenome Project pilot project.☆15Jan 16, 2026Updated last month
- Genome haplotype assembly and assessment method☆12Nov 24, 2023Updated 2 years ago
- Whole organelle genome-wide alignment construction method, which ultilizes BLAST tool, to facilitate phylogeny analysis☆15Aug 27, 2023Updated 2 years ago
- GO KEGG annotation☆39Oct 19, 2022Updated 3 years ago
- a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees☆27Sep 16, 2025Updated 5 months ago
- De novo annotation of young retrotransposons☆47Apr 12, 2022Updated 3 years ago
- BITACORA: A Bioinformatics tool for gene family annotation☆53Dec 10, 2025Updated 2 months ago
- MUM&Co uses Whole Genome Alignment information provided by MUMmer (only v4) to detect Structural Variation☆76Jan 12, 2026Updated last month
- Chromosome-level synteny plotting using orthologous regions☆31Sep 19, 2024Updated last year
- ☆12Jun 12, 2023Updated 2 years ago
- ☆15Jul 21, 2022Updated 3 years ago
- Quartet-based species tree and tree of blob estimation☆14Feb 10, 2026Updated last week
- ☆15Aug 6, 2025Updated 6 months ago