alexcritschristoph / MicrobialGenomicsScripts
A selection of short scripts for analyzing microbial genomes
☆14Updated 6 years ago
Related projects ⓘ
Alternatives and complementary repositories for MicrobialGenomicsScripts
- Identifying ViRal and Circular content in metAgenomes☆11Updated 5 years ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆13Updated 2 years ago
- PARTIE is a program to partition sequence read archive (SRA) metagenomics data into amplicon and shotgun data sets. The user-supplied ann…☆25Updated last year
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- BinaRena: Interactive Visualization and Binning of Metagenomic Contigs☆29Updated 3 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆22Updated 4 months ago
- PLSDB pipeline to collect bacterial plasmids from NCBI☆36Updated last month
- Microbial agile accurate SNP Typer☆29Updated 10 months ago
- Gene-flank analysis tool☆26Updated 6 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆46Updated 2 years ago
- ☆21Updated last year
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆28Updated 4 months ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆28Updated 6 years ago
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- ☆43Updated last year
- MAG Circularization Method☆33Updated 2 years ago
- Intra-species bacterial contamination detection☆22Updated this week
- Recombination-free trees☆56Updated last year
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆36Updated 11 months ago
- A script for comparing old vs new versions of genome annotations☆20Updated last year
- Set of utilities on sequences and BAM files☆25Updated 3 years ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 7 years ago
- ☆20Updated 7 years ago
- Prophage Activity Estimator☆26Updated 5 months ago
- Classify metagenomic contigs as eukaryotic or prokaryotic☆31Updated last year
- strain-level analysis tools☆33Updated last month
- BiG-MEx implementation as Docker images and R packages☆12Updated 2 years ago
- Detect contigs of complete circular genomes☆21Updated 5 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆19Updated 5 years ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated last year