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Jun 19, 2021 - Python
phage
Here are 15 public repositories matching this topic...
PhageOrder is a python package designed to reorder phage genomes based on its terminase subunit.
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Feb 26, 2024 - Python
Configurable short read de novo assembly container using SPAdes and bbmap
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May 10, 2024 - Python
Nanopore long read assembly data pipeline for phage genomes
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Jun 27, 2024 - Python
Illumina short read assembly data pipeline for phage
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Jun 26, 2024 - Python
Scripts to analyze the data for the paper "An outstanding bacterial membranome requires CRISPR-Cas systems to avoid the intervention of phages" and derive the figures or subfigures shown in the manuscript.
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Oct 11, 2022 - Python
A powerful deep learning (DL) tool and the trained models for the phage gene and protein identification with convolutional neural network (CNN).
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Nov 3, 2018 - Python
Report, proposal, and mvp implementation of a simple tool for use in finding motifs in genome data. 🧬
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Mar 1, 2022 - Python
A toy MC model studying bacteria-phage coevolution dynamics. Code is meant to be readable instead of performant, or, well, good. Good for beginners in ABM
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Jul 5, 2022 - Python
codoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, phage, etc.) relative to the full genome.
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Jul 26, 2024 - Python
This is the complete code base used in Robert A. Edwards, Katelyn McNair, Karoline Faust, Jeroen Raes, and Bas E. Dutilh (2015) Computational approaches to predict bacteriophage–host relationships. FEMS Microbiology Reviews doi: 10.1093/femsre/fuv048
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Nov 7, 2021 - Python
code repo for mobileOG-db
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Jun 30, 2024 - Python
zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
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Jul 26, 2024 - Python
PHANOTATE: a tool to annotate phage genomes.
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Feb 29, 2024 - Python
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