broadinstitute / StrainGELinks
strain-level analysis tools
☆39Updated last year
Alternatives and similar repositories for StrainGE
Users that are interested in StrainGE are comparing it to the libraries listed below
Sorting:
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆59Updated 7 months ago
- Automated strain separation of low-complexity metagenomes☆53Updated 4 years ago
- Bacterial GWAS analysis☆46Updated last month
- Recombination-free trees☆62Updated 3 months ago
- Gene-flank analysis tool☆34Updated 11 months ago
- Microbial agile accurate SNP Typer☆29Updated last year
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆39Updated last year
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated 4 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 7 months ago
- MAGScoT - a MAG scoring and refinement tool☆39Updated last year
- Phylogeny Enhanded Prediction of PAN-genome☆43Updated 5 years ago
- Discover and annotate the virome☆54Updated last month
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago
- Split Kmer Analysis☆65Updated 3 years ago
- IslandPath standalone software☆34Updated 2 years ago
- MAG Circularization Method☆32Updated last month
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆15Updated 3 years ago
- A toolkit for prokaryotic comparative genomics☆51Updated last month
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆24Updated 2 years ago
- frame-shift correction for long-read (meta)genomics☆33Updated last year
- Microbial Genome Circular plotting tool for comparative genomics using Circos☆38Updated 2 years ago
- Automatic eukaryotic taxonomic classification☆28Updated 7 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 3 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆31Updated last year
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 5 months ago