ArticleGigaScience2022
What the Phage: a scalable workflow for the identification and analysis of phage sequences.
Article in GigaScience, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
28 citing papers in PubMed.
- Eco-evolutionary dynamics of massive, parallel bacteriophage outbreaks in compost communities.Science advances · 2026Article
- Temporal dynamics of microbiome communities within urban compost piles undergoing the heat process.bioRxiv : the preprint server for biology · 2026Article
- Bacteriophages in gut metagenomes: from analysis to application.Virology journal · 2026Review
- Trait-based signatures associated with persistence and thermal benefit in a genomically decayed coral probiotic.The ISME journal · 2026Article
- Bacteriophages in Antarctic subglacial lakes reveal novel biodiversity and biogeochemical potential.ISME communications · 2026Article
- ViromeXplore: integrative workflows for complete and reproducible virome characterization.Briefings in bioinformatics · 2025Article
- Phage quest: a beginner's guide to explore viral diversity in the prokaryotic world.Briefings in bioinformatics · 2025Review
- Metaproteomics in the One Health framework for unraveling microbial effectors in microbiomes.Microbiome · 2025Review
- Tunturi virus isolates and metagenome-assembled viral genomes provide insights into the virome of Acidobacteriota in Arctic tundra soils.Microbiome · 2025Article
- Characterization and genome analysis of novel Klebsiella pneumoniae phage vbKpUKJ_2 isolated from hospital sewage water.BMC microbiology · 2025Article
- Diversification ofMicroorganisms · 2024Article
- Benchmarking bioinformatic virus identification tools using real-world metagenomic data across biomes.Genome biology · 2024Article
- Diversity and potential host-interactions of viruses inhabiting deep-sea seamount sediments.Nature communications · 2024Article
- Appelmans protocol - A directed in vitro evolution enables induction and recombination of prophages with expanded host range.Virus research · 2024Article
- Hecatomb: an integrated software platform for viral metagenomics.GigaScience · 2024Article
- VIRify: An integrated detection, annotation and taxonomic classification pipeline using virus-specific protein profile hidden Markov models.PLoS computational biology · 2023Article
- Gauge your phage: benchmarking of bacteriophage identification tools in metagenomic sequencing data.Microbiome · 2023Article
- Evaluation of computational phage detection tools for metagenomic datasets.Frontiers in microbiology · 2023Article
- What the Phage: a scalable workflow for the identification and analysis of phage sequences.GigaScience · 2022Article
- MetaPhage: an Automated Pipeline for Analyzing, Annotating, and Classifying Bacteriophages in Metagenomics Sequencing Data.mSystems · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Phages are among the most abundant and diverse biological entities on earth. Phage prediction from sequence data is a crucial first step to understanding their impact on the environment. A variety of bacteriophage prediction tools have been developed over the years. They differ in algorithmic approach, results, and ease of use. We, therefore, developed "What the Phage" (WtP), an easy-to-use and parallel multitool approach for phage prediction combined with an annotation and classification downstream strategy, thus supporting the user's decision-making process by summarizing the results of the different prediction tools in charts and tables. WtP is reproducible and scales to thousands of datasets through a workflow manager (Nextflow). WtP is freely available under a GPL-3.0 license (https://github.com/replikation/What_the_Phage).
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.