gtonkinhill / tracsLinks
Fast pairwise transmission inference from single genome and/or metagenomic data
☆21Updated last month
Alternatives and similar repositories for tracs
Users that are interested in tracs are comparing it to the libraries listed below
Sorting:
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆49Updated last month
- Plasmid analysis using rearrangement distances☆45Updated 3 months ago
- ☆20Updated last week
- Genome size estimation from long read overlaps☆59Updated last week
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆60Updated 2 months ago
- Calculate assocations between genes and traits☆25Updated 5 months ago
- A new high-resolution long-read metagenome assembler for even noisy reads☆79Updated last month
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆19Updated 2 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated 2 weeks ago
- ☆24Updated 7 months ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆53Updated 4 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆36Updated 4 months ago
- Find Prokaryotic DNA methylase genes in proteins, contigs, or genomes☆11Updated last year
- ☆10Updated 2 months ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆26Updated 3 years ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated last month
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- strain-level analysis tools☆39Updated 10 months ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated last year
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆25Updated last month
- This is graphanalyzer.py, a script designed to automatically interpret the outputs generated by vConTACT2 when using the INPHARED databas…☆18Updated last year
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Recombination-free trees☆59Updated 5 months ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆23Updated 2 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago
- RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches☆47Updated last month
- Microbial agile accurate SNP Typer☆30Updated last year