Add missing release info to release notes docs.

Add missing release info to release notes docs.

README.rst

@@ -30,10 +30,10 @@ News and releases
 0.12.0 | 2022-08-16
 ^^^^^^^^^^^^^^^^^^^
 
-* Only databases in Feather v2 format are supported now (ctxcore >= 0.2),
-  which allow uses recent versions of pyarrow (>=8.0.0) instead of very old ones (<0.17).
+* Only databases in Feather v2 format are supported now (`ctxcore <https://github.com/aertslab/ctxcore>`_ ``>= 0.2``),
+  which allow uses recent versions of pyarrow (``>=8.0.0``) instead of very old ones (``<0.17``).
   Databases in the new format can be downloaded from https://resources.aertslab.org/cistarget/databases/
-  and end with `*.genes_vs_motifs.rankings.feather` or `*.genes_vs_tracks.rankings.feather`.
+  and end with ``*.genes_vs_motifs.rankings.feather`` or ``*.genes_vs_tracks.rankings.feather``.
 * Support clustered motif databases.
 * Use custom multiprocessing instead of dask, by default.
 * Docker image uses python 3.10 and contains only needed pySCENIC dependencies for CLI usage.

docs/releasenotes.rst

@@ -1,6 +1,74 @@
 Release Notes
 =============
 
+0.12.0 | 2022-08-16
+^^^^^^^^^^^^^^^^^^^
+
+* Only databases in Feather v2 format are supported now (`ctxcore <https://github.com/aertslab/ctxcore>`_ ``>= 0.2``),
+  which allow uses recent versions of pyarrow (``>=8.0.0``) instead of very old ones (``<0.17``).
+  Databases in the new format can be downloaded from https://resources.aertslab.org/cistarget/databases/
+  and end with ``*.genes_vs_motifs.rankings.feather`` or ``*.genes_vs_tracks.rankings.feather``.
+* Support clustered motif databases.
+* Use custom multiprocessing instead of dask, by default.
+* Docker image uses python 3.10 and contains only needed pySCENIC dependencies for CLI usage.
+* Remove unneeded scripts and notebooks for unused/deprecated database formats.
+
+0.11.2 | 2021-05-07
+^^^^^^^^^^^^^^^^^^^
+
+* Split some core cisTarget functions out into a separate repository, `ctxcore <https://github.com/aertslab/ctxcore>`_. This is now a required package for pySCENIC.
+
+0.11.1 | 2021-02-11
+^^^^^^^^^^^^^^^^^^^
+
+* Fix bug in motif url construction (#275)
+* Fix for export2loom with sparse dataframe (#278)
+* Fix sklearn t-SNE import (#285)
+* Updates to Docker image (expose port 8787 for Dask dashboard)
+
+0.11.0 | 2021-02-10
+^^^^^^^^^^^^^^^^^^^
+
+**Major features:**
+
+* Updated arboreto_ release (GRN inference step) includes:
+
+  * Support for sparse matrices (using the ``--sparse`` flag in ``pyscenic grn``, or passing a sparse matrix to ``grnboost2``/``genie3``).
+  * Fixes to avoid dask metadata mismatch error
+
+* Updated cisTarget:
+
+  * Fix for metadata mismatch in ctx prune2df step
+  * Support for databases Apache Parquet format
+  * Faster loading from feather databases
+  * Bugfix: loading genes from a database (previously missing the last gene name in the database)
+
+* Support for Anndata input and output
+
+* Package updates:
+
+  * Upgrade to newer pandas version
+  * Upgrade to newer numba version
+  * Upgrade to newer versions of dask, distributed
+
+* Input checks and more descriptive error messages.
+
+  * Check that regulons loaded are not empty.
+
+* Bugfixes:
+
+  * In the regulons output from the cisTarget step, the gene weights were incorrectly assigned to their respective target genes (PR #254).
+  * Motif url construction fixed when running ctx without pruning
+  * Compression of intermediate files in the CLI steps
+  * Handle loom files with non-standard gene/cell attribute names
+  * Reformat the genesig gmt input/output
+  * Fix AUCell output to loom with non-standard loom attributes
+
+
+0.10.4 | 2020-11-24
+^^^^^^^^^^^^^^^^^^^
+
+* Included new CLI option to add correlation information to the GRN adjacencies file. This can be called with ``pyscenic add_cor``.
 
 0.10.3 | 2020-07-15
 ^^^^^^^^^^^^^^^^^^^