<![CDATA[BOL: Related items]]> https://bioinformaticsonline.com/related/43902?offset=310 https://bioinformaticsonline.com/bookmarks/view/41916/truvari-structural-variant-comparison-tool-for-vcfs Tue, 30 Jun 2020 21:30:44 -0500 https://bioinformaticsonline.com/bookmarks/view/41916/truvari-structural-variant-comparison-tool-for-vcfs <![CDATA[truvari: Structural variant comparison tool for VCFs]]> Structural variant comparison tool for VCFs

Given benchmark and comparsion sets of SVs, calculate the recall, precision, and f-measure.

Spiral Genetics

Motivation

Address of the bookmark: https://github.com/spiralgenetics/truvari

]]> Jit https://bioinformaticsonline.com/bookmarks/view/43120/ventoy-an-open-source-tool-to-create-bootable-usb-drive Tue, 29 Jun 2021 10:16:19 -0500 https://bioinformaticsonline.com/bookmarks/view/43120/ventoy-an-open-source-tool-to-create-bootable-usb-drive <![CDATA[Ventoy: an open source tool to create bootable USB drive]]> Ventoy is an open source tool to create bootable USB drive for ISO/WIM/IMG/VHD(x)/EFI files. With ventoy, you don't need to format the disk over and over, you just need to copy the image files to the USB drive and boot it. You can copy many image files at a time and ventoy will give you a boot menu to select them. x86 Legacy BIOS, IA32 UEFI, x86_64 UEFI, ARM64 UEFI and MIPS64EL UEFI are supported in the same way. Both MBR and GPT partition style are supported in the same way. Most type of OS supported(Windows/WinPE/Linux/Unix/Vmware/Xen...) 700+ ISO files are tested. 

Address of the bookmark: https://github.com/ventoy/Ventoy

]]> LEGE https://bioinformaticsonline.com/bookmarks/view/44483/baclife-an-automated-genome-mining-tool-for-identification-of-lifestyle-associated-genes Fri, 15 Mar 2024 04:59:14 -0500 https://bioinformaticsonline.com/bookmarks/view/44483/baclife-an-automated-genome-mining-tool-for-identification-of-lifestyle-associated-genes <![CDATA[bacLIFE: an automated genome mining tool for identification of lifestyle associated genes]]> bacLIFE is a streamlined computational workflow that annotates bacterial genomes and performs large-scale comparative genomics to predict bacterial lifestyles and to pinpoint candidate genes, denominated lifestyle-associated genes (LAGs), and biosynthetic gene clusters associated with each lifestyle detected. This whole process is divided into different modules:

  • Clustering module Predicts, clusters and annotates the genes of every input genome
  • Lifestyle prediction Employs a machine learning model to forecast bacterial lifestyle or other specified metadata
  • Analitical module (Shiny app) Results from the previous modules are embedded in a user-friendly interface for comprehensive and interactive comparative genomics.

You can find the complete wiki here [https://github.com/Carrion-lab/bacLIFE/wiki/bacLIFE-wiki]

Address of the bookmark: https://github.com/Carrion-lab/bacLIFE

]]> BioStar https://bioinformaticsonline.com/bookmarks/view/44896/jaeger-an-accurate-and-fast-deep-learning-tool-to-detect-bacteriophage-sequences Sun, 31 Aug 2025 06:30:16 -0500 https://bioinformaticsonline.com/bookmarks/view/44896/jaeger-an-accurate-and-fast-deep-learning-tool-to-detect-bacteriophage-sequences <![CDATA[Jaeger : an accurate and fast deep-learning tool to detect bacteriophage sequences]]> Jaeger is a tool that utilizes homology-free machine learning to identify phage genome sequences that are hidden within metagenomes. It is capable of detecting both phages and prophages within metagenomic assemblies.

Address of the bookmark: https://github.com/MGXlab/Jaeger

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