iqbal-lab-org / plingLinks
Plasmid analysis using rearrangement distances
☆49Updated 4 months ago
Alternatives and similar repositories for pling
Users that are interested in pling are comparing it to the libraries listed below
Sorting:
- Strain-level haplotyping for metagenomes with short or long-reads.☆63Updated 9 months ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆22Updated 5 months ago
- Recombination-free trees☆63Updated 4 months ago
- Automated strain separation of low-complexity metagenomes☆52Updated 4 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 7 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆44Updated 9 months ago
- A new high-resolution long-read metagenome assembler for even noisy reads☆119Updated this week
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated last week
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆33Updated 5 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 8 months ago
- Colinear block visualisation tool☆31Updated 2 years ago
- Genome size estimation from long read overlaps☆80Updated last month
- Remove human reads from a sequencing run☆47Updated last month
- Microbial agile accurate SNP Typer☆30Updated 2 years ago
- reference-based long read assemblies of bacterial genomes☆50Updated 4 years ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated 4 months ago
- viralFlye pipeline☆18Updated last year
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Quickly generate consensus assemblies for bacterial genomes☆14Updated 4 months ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago
- ☆27Updated 7 months ago
- ☆24Updated 11 months ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids using protein structural information☆33Updated this week
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆36Updated 4 years ago
- Jaeger is a quick and precise tool for detecting phages in sequence assemblies.☆35Updated last week
- Bacterial GWAS analysis☆46Updated last week
- Split Kmer Analysis☆67Updated 3 years ago