zheminzhou / pHierCC
Hierarchical clustering of cgMLST
☆11Updated last year
Alternatives and similar repositories for pHierCC:
Users that are interested in pHierCC are comparing it to the libraries listed below
- ☆11Updated 2 years ago
- This repository contains R code for building a heatmap and histogram with the output of FastANI☆16Updated 3 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- Pipeline for metagenome and metatranscriptome joint assembly☆20Updated 2 years ago
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆26Updated last month
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes☆16Updated 5 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆25Updated 2 years ago
- Set of utilities on sequences and BAM files☆26Updated 3 years ago
- pGWAS and functional filtering pipeline to identify candidate adaptive genetic traits in bacteria☆11Updated 7 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- Prophage Activity Estimator☆26Updated 9 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆18Updated 11 months ago
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆32Updated 3 years ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆34Updated last week
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆31Updated 2 years ago
- Taxonomic classification of viruses at Order and Family level☆20Updated 2 years ago
- Quality control plotting for long reads☆10Updated 9 months ago
- Gene-flank analysis tool☆27Updated 2 months ago
- ☆18Updated 2 years ago
- Tool for unsupervised contig binning from viral metagenomes☆16Updated 3 years ago
- Calculate assocations between genes and traits☆23Updated 4 months ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆18Updated last year
- ☆20Updated 5 months ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆23Updated 6 years ago
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆24Updated last week
- Influenza genome analysis Nextflow workflow☆19Updated last month
- EzAAI - High Throughput Prokaryotic AAI Calculator☆38Updated 4 months ago
- The Prokaryotic Genomics and Comparative Genomics Analysis Pipeline☆38Updated 2 years ago
- IslandPath standalone software☆31Updated last year