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Releases: rajewsky-lab/spacemake

0.7.9

25 Apr 09:52
41c65ef
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  • Fixed issues with STAR shared memory indexes

v0.7.7

18 Apr 13:04
70b86b1
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This release provides better RAM usage and faster processing through the following features:

  • Lower RAM consumption during the fastq to BAM step.
  • Lower RAM consumption and increased ~5x faster processing during the h5ad creation step.
  • STAR now loads the genome index only once in memory and shares it across workers.

0.7.6

18 Apr 06:33
53fccd3
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  • Fixed a critical bug when processing merging samples
  • Updated documentation to describe the Open-ST workflow

0.7.5

27 Feb 08:30
cdcfc43
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  • Fixed several bugs.
  • Added support for open-ST run_mode, and barcode_flavor.

0.7.2

24 Apr 15:13
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  • Updated the environment.yaml to pin the pandas version.
  • Fixed bugs and errors.

v0.7

02 Dec 12:45
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  • Added support for multiple references per species (genome, rRNA, mirgenedb etc).
  • The multiple species references are controlled through the map_strategy variable (e.g. rRNA->genome).
  • Implemented an optimized algorithm for binning (meshing) coordinate systems.
  • Added support for easy addition of custom rules into the workflow.
  • Added unit tests.
  • Updated the environment.yaml to pin the OpenJDK version.
  • Fixed several bugs and errors.

v0.5.5

30 Jun 12:22
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  • fixed issue with --version introduced in v0.5.4
  • fixed command line error where updating a sample from the command line would remove puck_ids

v0.5.4

12 Apr 19:53
e1b9c37
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  • Each sample can have multiple barcode files
  • Added a novosparc tutorial
  • Bugfixes:
    • read-only project_df.csv during spacemake run
    • adding new puck command

v0.5.3

05 Apr 21:01
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  • Further bugfixes
  • Completed docs with longread tutorial

v0.5.2

28 Mar 18:38
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  • Fixed errors during initialization and species download
  • Updated docs