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
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆25Updated 2 years ago
- This repository contains R code for building a heatmap and histogram with the output of FastANI☆17Updated 3 years ago
- 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
- Prophage Activity Estimator☆26Updated 10 months ago
- Extract metadata from biosamples in NCBI☆14Updated 4 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated last year
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes☆16Updated 5 years ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- ☆18Updated 3 years ago
- pGWAS and functional filtering pipeline to identify candidate adaptive genetic traits in bacteria☆11Updated 7 years ago
- Set of utilities on sequences and BAM files☆27Updated 3 years ago
- Taxonomic classification of viruses at Order and Family level☆20Updated 2 years ago
- Structural and functional annotation of eukaryotic metagenome-assembled genomes☆22Updated last year
- Nanomotif - a tool for identifying methylated motifs in metagenomic samples☆25Updated this week
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆27Updated 2 months ago
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆21Updated last year
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13Updated 6 years ago
- ☆31Updated last year
- Calculate assocations between genes and traits☆23Updated last month
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆25Updated last week
- EzAAI - High Throughput Prokaryotic AAI Calculator☆40Updated 6 months ago
- Pipeline for metagenome and metatranscriptome joint assembly☆21Updated 2 years ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆34Updated this week
- Quality control plotting for long reads☆10Updated 11 months ago
- IslandPath standalone software☆32Updated last year
- Automatic evaluation of HGTs☆28Updated 2 months ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆18Updated 2 years ago
- Gene Absence Presence Identification tool.☆26Updated 3 weeks ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated last month