congyulu-bioinfo / PHP
Prokaryotic virus Host Predictor (PHP) is a computational tool for host prediction of prokaryotic viruses based on Gaussian Model (GM). PHP takes the complete or partial genomic sequences of prokaryotic viruses as inputs. For each virus sequence, PHP automatically calculates the probability of host for 60,105 prokaryotic genomes and takes the pr…
☆11Updated 4 years ago
Alternatives and similar repositories for PHP:
Users that are interested in PHP are comparing it to the libraries listed below
- Phage-Host Interaction Search Tool☆27Updated 7 months ago
- ☆17Updated 2 years ago
- Predict prokaryotic host for phage metagenomic sequences☆52Updated 5 months ago
- VirHostMatcher: matching hosts of viruses based on oligonucleotide frequency (ONF) comparison☆30Updated 6 years ago
- VirHostMatcher-Net: A network-based computational tool for predicting virus-host interactions.☆19Updated 3 years ago
- ☆19Updated 3 years ago
- ☆16Updated 3 years ago
- Graph convolutional neural network for host prediction☆19Updated 2 years ago
- ☆31Updated last year
- Eukfinder: A pipeline to retrieve microbial eukaryote genomes from metagenomic sequencing data☆16Updated last week
- Prophage Activity Estimator☆26Updated 8 months ago
- VIRIDIC (Virus Intergenomic Distance Calculator) computes pairwise intergenomic distances/similarities amongst viral genomes.☆14Updated last year
- Rapid discovery of novel prophages using biological feature engineering and machine learning☆37Updated 2 months ago
- A simple program to classify the lifestyle of phages.☆16Updated last year
- ViromeQC is a computational tool to benchmark and quantify non-viral contamination in VLP-enrihed viromes. ViromeQC provides an enrichmen…☆18Updated 2 years ago
- ☆28Updated this week
- Unified Human Gut Virome Catalog☆27Updated 7 months ago
- Prophage Tracer: precisely tracing prophages in prokaryotic genomes using overlapping split-read alignment☆23Updated 4 months ago
- HOTSPOT is a hierarchical host prediction tool for plasmid contigs using Transformer.☆10Updated 10 months ago
- PhaTYP: Predicting lifestyle for bacteriophages using BERT☆13Updated 3 months ago
- This is graphanalyzer.py, a script designed to automatically interpret the outputs generated by vConTACT2 when using the INPHARED databas…☆18Updated last year
- Supplementary data for co-occurrence manuscript☆10Updated 5 years ago
- ☆10Updated last month
- This is a deep learning method for identification of viral contigs with short length from metagenomic data.☆10Updated 3 years ago
- Code and database related to our manuscript "Predicting bacteriophage hosts based on receptor-binding proteins"☆12Updated last year
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆32Updated 3 years ago
- A fork of Prodigal meant to improve gene calling for giant viruses and viruses that use alternative genetic codes☆32Updated last year
- Jaeger is a quick and precise tool for detecting phages in sequence assemblies.☆25Updated 3 months ago
- Host prediction for phages☆23Updated 3 months ago
- Viral protein family functional prediction using protein language models☆18Updated 8 months ago