Altered version of PathoFact to work more conveniently with SLURM and large input files
☆14Nov 7, 2024Updated last year
Alternatives and similar repositories for PathoFact
Users that are interested in PathoFact are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Host prediction for phages☆28Nov 6, 2024Updated last year
- Identify and remove contaminants from metagenome-assembled genomes☆18Feb 16, 2024Updated 2 years ago
- AMPDeep: Hemolytic Activity Prediction of Antimicrobial Peptides using Transfer Learning☆13Aug 15, 2022Updated 3 years ago
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆53Aug 16, 2021Updated 4 years ago
- ☆23Dec 11, 2024Updated last year
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- This repository contains python classes and functions to quickly create a profiling tool for pathogen NGS data☆14Jun 9, 2026Updated 2 months ago
- GCN classifier for phage taxanomy classification☆32Nov 6, 2024Updated last year
- ☆15Jun 24, 2024Updated 2 years ago
- This is the supplementary code for CRC-multi-kingdom☆17Nov 8, 2021Updated 4 years ago
- Functional Mapping and Analysis Pipeline for metagenomics and metatranscriptomics studies☆26Feb 28, 2023Updated 3 years ago
- A pipeline for for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets☆31Nov 9, 2025Updated 9 months ago
- ☆22Sep 4, 2024Updated last year
- TEINet: a deep learning framework for prediction of TCR-epitope binding specificity☆16Jun 30, 2023Updated 3 years ago
- A PyTorch implementation of "Automatic Identification and Virtual Directed Evolution of Antimicrobial Peptides with Explainable Deep Lear…☆44Aug 1, 2025Updated last year
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- HGTphyloDetect is a versatile toolbox to identify horizontal gene transfer (HGT) events combined with phylogenetic analysis.☆43Feb 11, 2023Updated 3 years ago
- AMR/VF LGT focused bacterial genomics analysis workflow☆28Feb 19, 2026Updated 5 months ago
- De novo VIral Genome Annotator☆24Jan 11, 2026Updated 6 months ago
- detect temperate phage (active prophage) in assembled bacterial genome sequences☆15Feb 10, 2022Updated 4 years ago
- Predict AMPs in (meta)genomes and peptides☆96Jul 19, 2026Updated 3 weeks ago
- ☆23May 8, 2023Updated 3 years ago
- Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.☆152Jul 11, 2026Updated last month
- Phage annotations and predictions. A spae is a prediction or foretelling. We'll foretell you what your phage is doing!☆46Jun 1, 2026Updated 2 months ago
- PlasMAAG is a tool to recover plasmids and organisms from metagenomic samples☆32Jun 22, 2026Updated last month
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- An R interface to the omixer-rpm for turning metagenomic functional profiles into pathway/module profiles☆12Dec 16, 2022Updated 3 years ago
- Instantaneous Metagenome Taxonomic Profiling with MetaKSSD☆27Nov 3, 2025Updated 9 months ago
- ☆22Nov 13, 2019Updated 6 years ago
- Improvement of metagenome-assembled genomes☆57Mar 17, 2020Updated 6 years ago
- This is an R package for element cycle analysis using metagenomic data.☆48Feb 2, 2026Updated 6 months ago
- A powerful Perl module for simulating the genome digestions by restriction enzymes☆14Sep 10, 2024Updated last year
- Semi-parametric simulation of bulk and single cell RNA-seq data☆10Nov 17, 2024Updated last year
- Draw pan- and core-genome curves from proteinortho output☆14Oct 26, 2023Updated 2 years ago
- ☆23Jan 6, 2026Updated 7 months ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Identifying misassemblies via deep learning☆11May 1, 2024Updated 2 years ago
- Plann: a command-line application for annotating plastome sequences☆13Aug 5, 2022Updated 4 years ago
- Compute strain abundance in a defined microbial community☆10Jul 27, 2023Updated 3 years ago
- ☆16Jun 21, 2023Updated 3 years ago
- GraphSNP: Using graph approach to investigate outbreak cluster and transmission in a web browser☆13Oct 5, 2025Updated 10 months ago
- Fast and accurate Average Genome Size and 16S rRNA gene Average Copy Number computation in metagenomic data☆16Dec 20, 2024Updated last year
- ☆88Oct 6, 2022Updated 3 years ago