samnooij / PathoFactLinks
Altered version of PathoFact to work more conveniently with SLURM and large input files
☆13Updated last year
Alternatives and similar repositories for PathoFact
Users that are interested in PathoFact are comparing it to the libraries listed below
Sorting:
- A wrapper to identify, bin, classify, and predict host-viral relationship for viruses☆82Updated 11 months ago
- ☆61Updated last year
- A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during…☆81Updated 3 months ago
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆51Updated 4 years ago
- ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Dat…☆66Updated 8 months ago
- Horizontal gene transfer (HGT) identification pipeline☆63Updated 2 years ago
- ☆63Updated last year
- code repo for mobileOG-db☆41Updated last month
- ☆54Updated 5 months ago
- Binning Virus Genomes from Metagenomes☆67Updated 3 years ago
- ☆31Updated 10 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
- Reference-quality genome reconstruction from complex metagenomes (or bacterial isolates) using only Nanopore long reads or both long and …☆33Updated 2 years ago
- Taxonomic classification of viruses at Order and Family level☆21Updated 2 years ago
- Recovery of prokaryotic genomes from shotgun metagenomic sequencing data☆62Updated 4 years ago
- Supporting code for uncultivated gut virus manuscript☆76Updated 2 years ago
- A pipeline for nanopore long-read metagenomic analysis.☆51Updated 2 weeks ago
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆124Updated 2 years ago
- An algorithm for clustering metagenomic sequences.☆39Updated 8 months ago
- Snakemake workflow to detect and classify viruses in metagenome assemblies.☆19Updated last year
- ☆31Updated last year
- ☆35Updated last month
- A tool for identifying phages and plasmids from metagenomic fragments using deep learning☆45Updated 4 years ago
- Calculation of the Percentage of Conserved Proteins following Qin, Xie et al. 2014 but using DIAMOND instead of BLASTP for alignments.☆27Updated 7 months ago
- EzAAI - High Throughput Prokaryotic AAI Calculator☆44Updated 4 months ago
- A pipeline to computationally identify invertible DNA regions and quantify their orientations.☆31Updated last year
- Improvement of metagenome-assembled genomes☆54Updated 5 years ago
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆71Updated 5 years ago
- Bioinformatics tool to find integrons in bacterial genomes☆82Updated 7 months ago
- Predict prokaryotic host for phage metagenomic sequences☆52Updated last year