Guide through code for a Minimmap2 genome alignment and a seq-seq-pan pan-genome alignment with visualizations in R. The tutorial presents an example using two haplotypes of the optix locus in Heliconius butterflies.
☆19May 16, 2025Updated last year
Alternatives and similar repositories for Tutorial_pan_genomics
Users that are interested in Tutorial_pan_genomics are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Automated Rice Variant calling workflow for HPC, Cloud and Desktop systems.☆13May 11, 2024Updated 2 years ago
- I often use some of the self-written programs.☆16May 13, 2026Updated last week
- ☆11Mar 14, 2026Updated 2 months ago
- ☆31Nov 25, 2019Updated 6 years ago
- Code associated with the manuscript "A complete reference genome improves analysis of human genetic variation".☆17Jan 17, 2023Updated 3 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- ☆17Nov 26, 2023Updated 2 years ago
- Scripts to do haplotype analysis on pan genomes.☆20Sep 24, 2020Updated 5 years ago
- Download NCBI assembly genomes with ftp. rsync, ascp☆12Aug 2, 2022Updated 3 years ago
- Set of script for the paper on the cattle graph genome☆14Jan 10, 2023Updated 3 years ago
- Pan-3D genome analysis of soybean Hi-C data☆12Mar 6, 2023Updated 3 years ago
- ☆17Oct 31, 2025Updated 6 months ago
- Construct and Analyze the North American Vitis pangenome☆29Aug 19, 2025Updated 9 months ago
- ☆12Apr 10, 2021Updated 5 years ago
- Code used to process and analyze structural variants and short tandem repeat variants profiled in 719 deeply sequenced whole genomes as p…☆11Jun 25, 2019Updated 6 years ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- single cell and bulk RNASeq analysis scripts☆14Jan 13, 2022Updated 4 years ago
- B73Ab10 genome assembly methods☆16Jan 21, 2022Updated 4 years ago
- Integrate multiple genome assemblies into a pangenome graph☆37Jun 9, 2022Updated 3 years ago
- shared scripts in Lu Lab @ Tsinghua University☆14Nov 7, 2018Updated 7 years ago
- A Plant Presence/absence Variants Scanner and Pan-genome Construction Pipeline☆27May 24, 2021Updated 4 years ago
- ☆13Sep 1, 2020Updated 5 years ago
- Plotly BioVisualization 🎯 Interactive Needle and Manhattan Plots & Alignment Viewer☆11Feb 28, 2020Updated 6 years ago
- A graph-based pipeline used to call/genotype snvs/indels/SVs from NGS data☆17Aug 30, 2025Updated 8 months ago
- Bioinformatics pipelines for Resolwe☆19Mar 24, 2026Updated last month
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- ☆29Apr 16, 2023Updated 3 years ago
- Here, we de novo assembled 110 representative Setaria accessions from a worldwide collected 1,844 variteies, and performed pan-/graph- ge…☆29Sep 13, 2023Updated 2 years ago
- ☆18Oct 4, 2023Updated 2 years ago
- Accurate haplotype construction and detection of selection signatures enabled by 889 high quality pig genome sequences☆13May 11, 2023Updated 3 years ago
- lncRNA-screen☆25Apr 19, 2017Updated 9 years ago
- personal genome constructor☆11May 29, 2025Updated 11 months ago
- Bash scripts and data used in pantranscriptomic paper☆24Oct 21, 2022Updated 3 years ago
- GWAS analysis process based on EMMAX software☆18Dec 12, 2023Updated 2 years ago
- Genome alignment and synteny plots☆34Mar 24, 2026Updated last month
- 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.
- Analysis and figure generation code for the ABRF NGS Phase II Study on DNA-seq reproducibility☆18Aug 5, 2021Updated 4 years ago
- Step-wise assembly of the neonatal virome modulated by breast feeding.☆11Aug 20, 2021Updated 4 years ago
- WGS Sequencing In Hadoop MapReduce☆15Oct 13, 2020Updated 5 years ago
- Structure variants calling and genotyping scripts for pan-Zea☆22Nov 17, 2022Updated 3 years ago
- Example for TWAS☆12Jan 23, 2022Updated 4 years ago
- Scripts for Hill et al. (2022) doi:10.1093/molbev/msac085 🟣☆11Apr 28, 2023Updated 3 years ago
- ☆44Apr 19, 2026Updated last month