josephpetrone / RESCUE
Resolving Species Level Classification Using Emu
☆12Updated 10 months ago
Alternatives and similar repositories for RESCUE:
Users that are interested in RESCUE are comparing it to the libraries listed below
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆23Updated 9 months ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated last year
- Genome size estimation from long read overlaps☆55Updated 3 weeks ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆18Updated 2 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆28Updated this week
- MAGScoT - a MAG scoring and refinement tool☆35Updated 6 months ago
- tool to determine optimal refrerence genome given a set of fasta files☆14Updated last year
- software to identify primers that can distinguish genomes☆21Updated 3 months ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆37Updated last month
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆29Updated 3 months ago
- Remove human reads from a sequencing run☆40Updated 7 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆51Updated 3 weeks ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆44Updated 2 weeks ago
- MAG Circularization Method☆33Updated 2 years ago
- Calculate assocations between genes and traits☆23Updated last month
- Bacterial GWAS analysis☆40Updated 2 weeks ago
- A script for comparing old vs new versions of genome annotations☆20Updated last year
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated last week
- frame-shift correction for long-read (meta)genomics☆33Updated last year
- Intra-species bacterial contamination detection☆25Updated 2 months ago
- Primer design from single genes to whole gene families for unlocking the tree of life☆14Updated last month
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated 2 months ago
- Genomewide Epistasis Analysis on Bacteria☆14Updated 7 months ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆25Updated 2 years ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆27Updated 6 months ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated 10 months ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆20Updated 6 years ago
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- Phasing for metagenomics using PacBio long reads☆17Updated 3 years ago