fwhelan / coinfinderLinks
A tool for the identification of coincident (associating and dissociating) genes in pangenomes.
☆108Updated 2 years ago
Alternatives and similar repositories for coinfinder
Users that are interested in coinfinder are comparing it to the libraries listed below
Sorting:
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆145Updated 3 months ago
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆124Updated 2 years ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆117Updated last year
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆76Updated 7 months ago
- A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome☆100Updated this week
- A toolbox for comparative genomics.☆106Updated 4 years ago
- A pipeline for running AMRfinderPlus and collating results into functional classes☆90Updated last week
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆148Updated 2 months ago
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆79Updated 2 years ago
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆71Updated 5 years ago
- DDBJ Fast Annotation and Submission Tool☆83Updated 3 months ago
- MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.☆88Updated last year
- IS mapping software☆57Updated 4 years ago
- Bioinformatics tool to find integrons in bacterial genomes☆82Updated 7 months ago
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆88Updated 2 years ago
- ☆134Updated this week
- Reorients assembled microbial sequences☆130Updated 3 months ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆49Updated 2 years ago
- Prediction of prophages from bacterial genomes☆81Updated 5 months ago
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆51Updated 4 years ago
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆75Updated last year
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆93Updated 4 months ago
- Horizontal gene transfer (HGT) identification pipeline☆64Updated 2 years ago
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆121Updated last week
- Perl script for simulating PCR reactions. Extract sequences from a query based on primer sequences.☆48Updated 8 months ago
- Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes☆172Updated this week
- A wrapper to identify, bin, classify, and predict host-viral relationship for viruses☆82Updated 11 months ago
- ☆74Updated last week
- Making whole bacterial genome sequencing data analysis easy☆114Updated 7 months ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆60Updated last year