Desktop tool for microbial genome annotation and gene detection
☆13Jun 22, 2021Updated 4 years ago
Alternatives and similar repositories for pathogenie
Users that are interested in pathogenie are comparing it to the libraries listed below
Sorting:
- Assort phage protein sequences into phamilies using MMseqs2☆11Dec 16, 2024Updated last year
- Shared k-mer content between two genomes☆19Jun 21, 2023Updated 2 years ago
- Bioinformatics tool to find integrons in bacterial genomes☆85May 7, 2025Updated 9 months ago
- Calculate fastq reads and sequencing coverage☆15Oct 20, 2020Updated 5 years ago
- ☆21Nov 17, 2022Updated 3 years ago
- Short course describing the considerations for a successful RNA-seq experiment☆19Jan 13, 2022Updated 4 years ago
- Python module for parsing, writing, aligning, and manipulating glycan structrures☆10Feb 11, 2026Updated 2 weeks ago
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆28Feb 12, 2026Updated 2 weeks ago
- Small utility script to submit genomes to PHASTER for phage detection☆25Oct 21, 2021Updated 4 years ago
- A taxonomic classifier of plasmids☆28Jul 7, 2021Updated 4 years ago
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆29Aug 20, 2025Updated 6 months ago
- For distributing patric related code☆27Dec 19, 2022Updated 3 years ago
- Burrows-Wheeler Aligner for x86,x86_64, arm and aarch64 architectures (PC, Raspberry PI, ODROID, M1)☆10Apr 13, 2022Updated 3 years ago
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆80Sep 20, 2023Updated 2 years ago
- PHANOTATE: a gene caller for phages.☆84Dec 2, 2024Updated last year
- Rapid discovery of novel prophages using biological feature engineering and machine learning☆37Dec 20, 2024Updated last year
- Lecture on viral phylodynamics☆11Oct 28, 2021Updated 4 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Dec 11, 2020Updated 5 years ago
- Detect interesting SARS-CoV-2 spike protein variants from Sanger sequencing data.☆11Apr 15, 2022Updated 3 years ago
- A Python3 script for removal of outlier sequences from a multiple sequence alignment (FASTA format).☆10Jan 26, 2025Updated last year
- Bioactive Molecular Networks Project☆14Nov 17, 2020Updated 5 years ago
- ☆13Jun 5, 2024Updated last year
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆44Aug 20, 2025Updated 6 months ago
- Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure☆173Updated this week
- Encode an image to sound (WAV file) and view it as a spectrogram. Optimized Python 3 version.☆11Jan 25, 2023Updated 3 years ago
- abi2fastq is a small utility to convert Sanger sequencing reads in .abi (applied biosystems) format to FASTQ☆11Sep 19, 2017Updated 8 years ago
- phylogenetic networks using ggplot2 and ggtree☆11Oct 22, 2025Updated 4 months ago
- Phylogenetic tools for Eco-phylogenetics☆14Oct 10, 2024Updated last year
- Gigabase: Synthetic Biology Cell Modeling Project☆19Nov 3, 2013Updated 12 years ago
- Python3 wrapper for parallelized gene prediction using Prodigal☆11Mar 3, 2023Updated 2 years ago
- convert a blast output to a bed file☆12Jun 19, 2015Updated 10 years ago
- Masks recombinant regions in an alignment based on ClonalFrameML output☆10May 18, 2018Updated 7 years ago
- Visualisation application for Klebsiella genotypes generated by Kleborate.☆10Sep 27, 2025Updated 5 months ago
- Python tool to reduce size and redundancy of phylogenetic datasets☆48Dec 5, 2025Updated 2 months ago
- Nucleic acid sequence designer☆12Jan 29, 2026Updated last month
- A VMD script to calculate side-chain and backbone dihedrals (torsion angles)☆14Jun 4, 2016Updated 9 years ago
- ☆10Jun 9, 2025Updated 8 months ago
- A visualization tool to support reviewing the scientific literature☆14Jun 2, 2018Updated 7 years ago
- The collected works of R. F. C. Walters☆13Nov 12, 2024Updated last year