diff --git a/pipelines/optimus/Optimus.changelog.md b/pipelines/optimus/Optimus.changelog.md index dfda2e5cb..8419f27cf 100644 --- a/pipelines/optimus/Optimus.changelog.md +++ b/pipelines/optimus/Optimus.changelog.md @@ -1,7 +1,20 @@ +# (next version) +2020-04-24 (Date of Last Commit) + +* Added a new counting_mode parameter to Optimus workflow which enables processing of single-nuclei datasets +* Updated Drop-seq tools to v2.3.0; this update is only used when the workflow is set to the single-nuclei mode (counting_mode = sn_rna) +* Updated sctools to support the single-nuclei parameter (counting_mode = sn_rna) +* Added tests for running the workflow when counting_mode = sn_rna +* Updated the Zarr and Loom output to include a global attribute describing the counting mode +* Added new example datasets that can be used with the Optimus workflow +* Updated the README documentation to detail the new counting_mode parameter, describe example datasets, and to include a new FAQ section + + + # optimus_v2.0.0 +2020-02-28 (Date of Last Commit) * Fixed bug that resulted in emptyDrops output being incorrect - * Updated workflow to WDL 1.0 # optimus_v1.4.0 @@ -9,11 +22,8 @@ 2019-11-08 (Date of Last Commit) * Addition of support for V3 chemistry - * Addition of input parameter validation step - * Greatly improved documentation - * Improvements to ZARR output # optimus_v1.3.6 @@ -21,13 +31,9 @@ 2019-09-23 (Date of Last Commit) * EmptyDrops output is now included in the ZARR output - * The GTF modification step is removed from the scatter, resulting in better performance and caching - * Memory of several tasks is increased - * The ZARR output is now compulsory and the relevant input flag has been removed - * Support for loom format has been added and a new optional flag dictates if the file is created Documentation has been updated @@ -49,7 +55,6 @@ Documentation has been updated 2019-08-08 (Date of Last Commit) * Release a new patch version of Optimus with an ambitious memory allocation for CalculateCellMetrics task. - * This version and all future versions have been scientifically validated on Mouse reference version mm10 (GRCm39, Gencode M21) # optimus_v1.3.2