2.3.0

Update autobuilds.yml

2.3

• A update to fix the issue Cannot set hg38 for genome in container model

2.2

Removed sigprofiler as the default due to the install issue. If you wanna use the sigprofiler, please previous version or install it with interactive mode.

Release 1.5

Another typo about hg38 reference build.

Release 1.4

Fix a typo which incorrectly assign the reference genome, thanks to @PalashPandey.

This release is not recommended, see release 1.5 please.

Release 1.3

• Add signature number selection plot to result directory.

Release 1.2

• 2020-09-15: Release Sigflow 1.2
  • Upgrade sigminer version (v1.0.18) to fix bug when outputing results for only one signatures (#17).

Release 1.1

• 2020-09-15: Prepare and try to release Sigflow 1.1. This is a version with its co-evolutionary R package Sigminer v1.0.17 and gold-standard de-novo signature extraction tool SigProfilerExtractor v1.0.17 as backends.
• 2020-09-14:
  • Add new command show to search cancer type specific reference signature indices and plot COSMIC signatures.
  • Support --refit in SigProfiler calling.
  • Fix a bug in identifying COSMIC v2 indices in signature fitting.
  • Upgrade sigminer version to v1.0.17.
• 2020-09-09:
  • Update README and documentation of input and usage.
• 2020-09-03:
  • Use sigminer v1.0.15 and support inputing reference signature index in fit and bt commands.
  • Allow users to decide if refit the signature exposures after de novo extraction with refit option.
  • Support matrix as input.
• 2020-08-14: Use sigminer v1.0.11 to use SigProfilerExtractor v1.0.15 to avoid issue raised from SigProfilerExtractor updates.

Release 1.0

• Support SigProfiler (v1.0.15).
• More clean code.
• Support maximum signature number setting.
• Support removing hyper-mutation for COSMIC signatures.

This release is based on sigminer v1.0.10 and R v4.0.2.

Release 0.1

• First stable release of sigflow
• Well configured and tested Docker image