Phylogeny Enhanded Prediction of PAN-genome
☆43Jul 17, 2020Updated 5 years ago
Alternatives and similar repositories for PEPPAN
Users that are interested in PEPPAN are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Pipeline for analysing intergenic regions in bacteria☆39Oct 25, 2019Updated 6 years ago
- all methods related to Enterobase☆44Sep 4, 2024Updated last year
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆64Mar 3, 2026Updated 3 weeks ago
- Microbial Genome Circular plotting tool for comparative genomics using Circos☆39Feb 1, 2023Updated 3 years ago
- A toolbox for pangenome analysis and threshold evaluation.☆100Jul 8, 2022Updated 3 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- A Nextflow full-length 16S profiling pipeline for ONT reads☆25Nov 16, 2023Updated 2 years ago
- All scripts used for the analysis of the twilight of the pan-genome, and scripts available for others to apply similar analysis☆19Mar 30, 2021Updated 4 years ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆119Dec 13, 2024Updated last year
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 2 years ago
- GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click…☆87Dec 15, 2024Updated last year
- Nanopore plasmid pipeline (FAST5 basecalling, assembly, plasmid identification and antimicrobial resistance genes identification).☆13Apr 20, 2021Updated 4 years ago
- A pipeline for high-quality bacterial genome construction using ONT sequencing☆38Sep 22, 2022Updated 3 years ago
- Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.☆121Jan 22, 2025Updated last year
- screening metagenomes for arbitrary lineages, using gene-centric assembly methods and phylogenetics☆11Oct 29, 2020Updated 5 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- A tool for the identification of coincident (associating and dissociating) genes in pangenomes.☆110Oct 20, 2023Updated 2 years ago
- Download NCBI assembly genomes with ftp. rsync, ascp☆12Aug 2, 2022Updated 3 years ago
- strain-level analysis tools☆39Oct 21, 2024Updated last year
- Rapid determination of appropriate reference genomes.☆100Jan 22, 2025Updated last year
- ☆59Updated this week
- A hybrid assembly and MAG recovery pipeline (and more!)☆104Jan 27, 2026Updated 2 months ago
- Processing pipeline for pan-genome visulization and exploration☆144Oct 9, 2023Updated 2 years ago
- A message queue for genomic surveillance☆20Oct 14, 2021Updated 4 years ago
- Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.☆31Feb 3, 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 and start building anything your business needs.
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆172Apr 16, 2025Updated 11 months ago
- ☆38Apr 14, 2022Updated 3 years ago
- ☆81Mar 19, 2026Updated last week
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆81Sep 20, 2023Updated 2 years ago
- A tool for removing redundant genomes from a set of assemblies☆79Sep 10, 2025Updated 6 months ago
- Identifying large scale inversions between two genomes by mapping genome 1's unique kmers onto genome 2.☆10Jun 6, 2025Updated 9 months ago
- linearize and simplify variation graphs using blocked partial order alignment☆61Feb 25, 2026Updated last month
- Plascad is a computationally efficient tool designed for plasmids classification, antibiotic resistance genes (ARGs) annotation and plasm…☆51Feb 2, 2021Updated 5 years ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆39Mar 7, 2025Updated last year
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Pairwise SNP distance matrix from a FASTA sequence alignment☆153Dec 31, 2025Updated 2 months ago
- nanodisco: a toolbox for discovering and exploiting multiple types of DNA methylation from individual bacteria and microbiomes using nano…☆74May 20, 2022Updated 3 years ago
- Archived - please see updated sccmec tool at link below☆13Aug 30, 2024Updated last year
- A taxonomic classifier of plasmids☆29Jul 7, 2021Updated 4 years ago
- ☆23Feb 7, 2022Updated 4 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Sep 23, 2022Updated 3 years ago
- Parallel/Homoplasic SNP Finder☆21May 3, 2023Updated 2 years ago