samnooij / PathoFactLinks
Altered version of PathoFact to work more conveniently with SLURM and large input files
☆14Updated last year
Alternatives and similar repositories for PathoFact
Users that are interested in PathoFact are comparing it to the libraries listed below
Sorting:
- ☆62Updated last year
- ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Dat…☆70Updated 10 months ago
- A wrapper to identify, bin, classify, and predict host-viral relationship for viruses☆85Updated last year
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆52Updated 4 years ago
- A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during…☆82Updated 4 months ago
- Reference-quality genome reconstruction from complex metagenomes (or bacterial isolates) using only Nanopore long reads or both long and …☆33Updated 2 years ago
- An algorithm for clustering metagenomic sequences.☆41Updated last month
- code repo for mobileOG-db☆43Updated 2 months ago
- Binning Virus Genomes from Metagenomes☆68Updated 3 years 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
- ☆65Updated last year
- ☆32Updated last year
- Horizontal gene transfer (HGT) identification pipeline☆65Updated 2 years ago
- ☆33Updated 11 months ago
- Recovery of prokaryotic genomes from shotgun metagenomic sequencing data☆62Updated 4 years ago
- ☆56Updated 6 months ago
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆124Updated 2 years ago
- Supporting code for uncultivated gut virus manuscript☆78Updated 2 years ago
- ☆35Updated 2 months ago
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆72Updated 5 years ago
- A pipeline for nanopore long-read metagenomic analysis.☆52Updated last month
- Taxonomic classification of viruses at Order and Family level☆21Updated 2 years ago
- Bioinformatics tool to find integrons in bacterial genomes☆82Updated 8 months ago
- ☆36Updated 3 years ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆68Updated 4 years ago
- A tool for identifying phages and plasmids from metagenomic fragments using deep learning☆45Updated 4 years ago
- HMM-based identification and categorization of iron genes and iron gene operons in genomes and metagenomes☆66Updated 3 years ago
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆40Updated 3 years ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆83Updated 2 weeks ago
- Prediction of prophages from bacterial genomes☆80Updated 7 months ago