v1.2.25

What's Changed

• v1.2.25: Add rn7 and resolve custom install tsb_BED path issue by @mdbarnesUCSD in #175

Full Changelog: v1.2.24...v1.2.25

v1.2.24

What's Changed

• Update v1.2.24: Fix ebv matrix generation by @mdbarnesUCSD in #174

Full Changelog: v1.2.23...v1.2.24

v1.2.23

What's Changed

Added to CLI:

1. SV matrix generator
2. CNV matrix generator

Additional changes:

1. Added Dockerfile
2. Modified reference_paths to accept a volume

• Upgrade to v1.2.23 by @mdbarnesUCSD in #173

Full Changelog: v1.2.22...v1.2.23

v1.2.22

What's Changed

• v1.2.22: CLI installs reference genomes using the ReferenceGenomeMana… by @mdbarnesUCSD in #170

Full Changelog: v1.2.21...v1.2.22

v1.2.21

What's Changed

• Add ReferenceGenomeManager that: by @mdbarnesUCSD in #169
• Remove benchmark script that was run in site-packages after a reference genome was installed

Full Changelog: v1.2.20...v1.2.21

v1.2.20

What's Changed

• I161 by @mdbarnesUCSD in #163

Full Changelog: v1.2.19...v1.2.20

v1.2.19

What's Changed

• Remove chdir by @mdbarnesUCSD in #157

Full Changelog: v1.2.18...v1.2.19

v.1.2.18

Release Notes for v1.2.18

Enhancements

• New Command-Line Interface (CLI):

  • A new and intuitive CLI, SigProfilerMatrixGenerator_CLI.py, has been launched to facilitate user interactions.
  • This interface accommodates essential tasks such as install and matrix_generator.
  • Enhanced user control for saving/loading reference genomes with the addition of the volume parameter.

• Testing Improvements:

  • Introduced additional tests to better validate the functionalities and ensure more reliable outcomes.

Additional Updates

• File Naming Update: To resolve issues with CLI imports, SigProfilerMatrixGenerator.py has been renamed to MutationMatrixGenerator.py.

• Documentation Refinement: The README has been revised to include the CLI updates.

• Added a status badge to indicate the FTP server's uptime.

Limitations

• CLI and CNV/SV Support: Please note that the current version of the CLI does not support CNV/SV functionalities. We are actively working on this and will provide updates in future releases.

Version 1.2

Stable version after releasing a series of hotfixes for compatibility across the SigProfiler suite of tools along with the support for additional reference genomes, custom genome installations, and offline genome installations.

Version 1.1

Stable version after releasing a series of hotfixes for compatibility across the SigProfiler suite of tools.