yinlabniu / HGT-Finder
Program for finding horizontal gene transfer using BLAST result
☆11Updated last year
Alternatives and similar repositories for HGT-Finder:
Users that are interested in HGT-Finder are comparing it to the libraries listed below
- Download NCBI assembly genomes with ftp. rsync, ascp☆10Updated 2 years ago
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes☆16Updated 5 years ago
- Quality control plotting for long reads☆10Updated 11 months ago
- DarkHorse2 source code☆10Updated 2 years ago
- Set of utilities on sequences and BAM files☆27Updated 3 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆25Updated 2 years ago
- Code for de novo discovery of viral families in virome data☆14Updated 10 months ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆20Updated 6 years ago
- Small and simple scripts useful for various bioinformatics purposes e.g. extract sequences from fasta files☆20Updated 2 years ago
- Genome-Genome circle synteny☆25Updated last year
- ZGA prokaryotic genome assembly and annotation pipeline☆12Updated 7 months ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆45Updated 2 years ago
- transposable element typing pipeline☆17Updated last year
- Primer design from single genes to whole gene families for unlocking the tree of life☆14Updated last month
- Formats Roary output for viewing in FriPan☆11Updated 6 years ago
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆27Updated 2 months ago
- genomic alignment similarity search tool☆18Updated 10 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated last year
- Find Prokaryotic DNA methylase genes in proteins, contigs, or genomes☆11Updated 10 months ago
- An R package to infer and analyze synteny networks from protein sequences☆29Updated 4 months ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- A repository for the lessons and notebooks used for Binder tutorials☆13Updated 4 years ago
- ☆22Updated 5 years ago
- Data analysis of Funannotate and Orthofinder outputs to Pangenome results☆19Updated 4 years ago
- ☆43Updated last year
- This repository contains R code for building a heatmap and histogram with the output of FastANI☆17Updated 3 years ago
- pGWAS and functional filtering pipeline to identify candidate adaptive genetic traits in bacteria☆11Updated 7 years ago
- Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop☆18Updated 9 years ago
- Genomewide Epistasis Analysis on Bacteria☆14Updated 7 months ago
- Perl and Python scripts allowing to get sequence information from GenBank, RefSeq or ENA sequence repositories☆14Updated 3 weeks ago