diff --git a/CHANGELOG.md b/CHANGELOG.md index 7e9750ef..22214466 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -3,18 +3,38 @@ The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/) and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html). -## [1.3.0dev] nfcore/quantms - [TBD] - Vaduz +## [1.3.0] nfcore/quantms - [08/04/2024] - Santiago ### `Added` +- [#335](https://github.com/bigbio/quantms/pull/335) (Performance improvement) Improvements in DIA pipeline to use random/subset files for library search +- [#351](https://github.com/bigbio/quantms/pull/351) Identification workflow for DDA data + ### `Changed` +- [#365](https://github.com/bigbio/quantms/pull/365) Updated sdrf-pipelines==0.0.26 +- [#359](https://github.com/bigbio/quantms/pull/359) Updated pmultiqc==0.0.25 + + ### `Fixed` +- [#357](https://github.com/bigbio/quantms/pull/357) Chymotrypsin -> Chymotrypsin/P in MSGF+ +- [#355](https://github.com/bigbio/quantms/pull/355) Fixes bin/diann_convert.py +- [#316](https://github.com/bigbio/quantms/pull/316) Fixing MSGF+ error + ### `Dependencies` ### `Parameters` +- id_only: Only perform identification, no quantification +- min_peaks: Minimum number of peaks in a spectrum to be considered for search +- export_decoy_psm: Export decoy PSMs +- skip_rescoring: Skip rescoring +- skip_preliminary_analysis: Skip preliminary analysis in DIA-NN +- empirical_assembly_log: Path to the empirical assembly log file +- random_preanalysis: Use random/subset files for library search +- empirical_assembly_ms_n: Number of MS runs to use for empirical assembly + ### `Deprecations` ## [1.2.0] nfcore/quantms - [11/02/2023] - Thimphu diff --git a/nextflow.config b/nextflow.config index 4f937255..d0ebf103 100644 --- a/nextflow.config +++ b/nextflow.config @@ -462,7 +462,7 @@ manifest { description = """Quantitative Mass Spectrometry nf-core workflow""" mainScript = 'main.nf' nextflowVersion = '!>=23.04.0' - version = '1.3.0dev' + version = '1.3.0' doi = '10.5281/zenodo.7754148' }