diff --git a/docs/conf.py b/docs/conf.py index c08d3928..6e451d08 100644 --- a/docs/conf.py +++ b/docs/conf.py @@ -20,13 +20,13 @@ # -- Project information ----------------------------------------------------- project = 'Cumulus' -copyright = '2020 - 2022 Genentech, Inc. and the Broad Institute, Inc. All rights reserved.' +copyright = '2022 Genentech, Inc. and the Broad Institute, Inc. All rights reserved.' author = 'Yiming Yang, Joshua Gould and Bo Li' # The short X.Y version -version = '2.1' +version = '2.2' # The full version, including alpha/beta/rc tags -release = '2.1.0' +release = '2.2.0' # -- General configuration --------------------------------------------------- diff --git a/docs/release_notes/version_2_2.rst b/docs/release_notes/version_2_2.rst index c7fcf80b..e24e1218 100644 --- a/docs/release_notes/version_2_2.rst +++ b/docs/release_notes/version_2_2.rst @@ -5,8 +5,8 @@ * Add `Nanostring GeoMx DSP`_ workflows. It consists of two steps: - * **GeoMxFastqToDCC** workflow to convert FASTQ files into DCC files by wrapping Nanostring GeoMx Digital Spatial NGS Pipeline. - * **GeoMxDCCToCountMatrix** workflow to generate probe count matrix from DCC files with pathologists' annotation. + * **GeoMx_fastq_to_dcc** workflow to convert FASTQ files into DCC files by wrapping Nanostring GeoMx Digital Spatial NGS Pipeline. + * **GeoMx_dcc_to_count_matrix** workflow to generate probe count matrix from DCC files with pathologists' annotation. **Updates:** diff --git a/docs/workflow_overview/index.rst b/docs/workflow_overview/index.rst index 2a944afa..69b2cc65 100644 --- a/docs/workflow_overview/index.rst +++ b/docs/workflow_overview/index.rst @@ -23,11 +23,11 @@ Cumulus workflows are written in WDL_ language, and published on Dockstore_. Bel - 1.2.0 - 2021-01-19 - Run STARsolo to generate gene-count matrices fro FASTQ files. - * - `GeoMxFastqToDCC `_ + * - `GeoMx_fastq_to_dcc `_ - 2.2.0 - 2022-10-04 - Run Nanostring GeoMx Digital Spatial NGS Pipeline, and convert FASTQ files into DCC files. - * - `GeoMxDCCToCountMatrix `_ + * - `GeoMx_dcc_to_count_matrix `_ - 2.2.0 - 2022-10-04 - Take the DCC zip file from *GeoMxFastqToDCC* workflow, as well as other output of GeoMx DSP machine as the input, and generate an Area Of Interest (AOI) by probe count matrix with pathologists' annotation.