fwhelan / coinfinderLinks
A tool for the identification of coincident (associating and dissociating) genes in pangenomes.
☆109Updated 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.☆146Updated 3 weeks ago
- A toolbox for comparative genomics.☆108Updated 4 years ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆119Updated last year
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆124Updated 2 years ago
- A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome☆102Updated last month
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆79Updated 8 months ago
- A pipeline for running AMRfinderPlus and collating results into functional classes☆91Updated last month
- IS mapping software☆57Updated 4 years ago
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆73Updated 5 years ago
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆123Updated 3 weeks ago
- Reorients assembled microbial sequences☆131Updated 5 months ago
- DDBJ Fast Annotation and Submission Tool☆83Updated 4 months ago
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆75Updated last year
- 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 3 months ago
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆89Updated 2 years ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆94Updated last month
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆81Updated 2 years ago
- Making whole bacterial genome sequencing data analysis easy☆114Updated 9 months ago
- MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.☆89Updated last year
- Horizontal gene transfer (HGT) identification pipeline☆66Updated 2 years ago
- Perl script for simulating PCR reactions. Extract sequences from a query based on primer sequences.☆48Updated 9 months ago
- HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.☆143Updated 2 years ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆61Updated last year
- Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes☆177Updated 2 weeks ago
- ☆84Updated 2 years ago
- A toolbox for pangenome analysis and threshold evaluation.☆99Updated 3 years ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆103Updated 3 weeks ago
- Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments☆107Updated 2 years ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆68Updated 4 years ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆210Updated 2 weeks ago