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@ManuelTgn ManuelTgn released this 27 Nov 16:39
v2.1.6
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CRISPRme v2.1.6 Release Notes

Description

This release introduces version 2.1.6 of CRISPRme, bringing significant updates, new features, and critical bug fixes. This version is designed to improve the performance and accuracy of off-target predictions and enhance the user experience in the CRISPRme ecosystem.

Key Features and Changes

🚀 New Features

  • Support for GNOMAD v4.1 VCFs (joint VCFs included): CRISPRme now supports GNOMAD v4.1 datasets, including joint variant files, enabling more comprehensive analyses.
  • Complete-test Function: A new complete-test function has been introduced for testing CRISPRme. This function provides a quick test for off-target prediction on a single chromosome, as well as a more detailed full-genome test.

🐛 Bug Fixes

  • Fix 1: Corrected the handling of indels in off-target reporting, ensuring that only valid off-targets created by indels are accurately identified, eliminating false positives.
  • Fix 2: Fixed a bug in the alternative alignments report, ensuring that all possible alignments for each off-target are accurately listed in the alternative alignments file.
  • Fix 3: Resolved issues with the visualization of the Personal Card tab in CRISPRme's GUI and website, improving usability and clarity.
  • Fix 4: Addressed a memory overflow issue during the merging of contiguous targets, ensuring more efficient performance and stability during large-scale analyses.

🛠 Enhancements

  • Upgraded DockerHub version with the latest improvements and fixes.

Upgrade Instructions

To upgrade to version 2.1.6, follow these steps:

  1. Create a new environment (if using mamba or conda):

    mamba create -n crisprme
mamba activate crisprme
mamba install crisprme=2.1.6

  2. Docker: Pull the latest version from DockerHub:

    docker pull pinellolab/crisprme:latest

Documentation Updates

  • The README.md has been updated to reflect the latest changes, including detailed documentation for the following functions:
    • complete-search
    • complete-test
    • targets-integration
    • gnomAD-converter
    • web-interface
    • generate-personal-card

Linked Issues

  • Closes #67, #62, #64 related to this release.

Full Changelog: v2.1.5...v2.1.6

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