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Releases: rmarkello/abagen

0.1.4

23 Jul 17:50
@rmarkello rmarkello
0.1.4
2aeab5b
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0.1.4 Latest
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Merge pull request #199 from rmarkello/add_preprint

[DOC] Adds reference to preprint + updates citation
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0.1.3

18 Jun 13:49
@rmarkello rmarkello
0.1.3
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0.1.3

0.1.3 (June 18, 2021)

More bug fixes for (identified thanks to @richardajdear and @Silflame!) as well as some minor QOL updates for getting sample-level information from workflows.

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0.1.1

29 Mar 18:27
@rmarkello rmarkello
0.1.1
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0.1.1

0.1.1 (March 29, 2021)

Small bug fix for when probe_selection='average' and a minor QOL update to check_atlas().

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0.1

25 Mar 22:46
@rmarkello rmarkello
0.1
4e29a34
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0.1

0.1 (March 25, 2021)

First minor release! 🎉 This update brings some major changes to the codebase, including a massive internal refactoring to allow handling of surface parcellations, new methods for interpolating missing data, and more!

Important: as this is our first official minor release, note that the changes in this release are not backwards compatible with previous versions.

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0.0.8

29 Jan 15:18
@rmarkello rmarkello
0.0.8
6a924aa
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0.0.8

0.0.8 (January 29, 2021)

Largely internal codebase changes, but an important bug fix for compatibility with newer versions of pandas.

Huge thanks to @4lovi4 for all their contributions!

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0.0.7

15 Oct 17:19
@rmarkello rmarkello
0.0.7
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0.0.7

0.0.7 (October 15, 2020)

Only two changes—but relatively impactful ones—including the addition of a new workflow-style function (abagen.get_samples_in_mask()) to get preprocessed tissue samples without aggregating in specific brain regions and the ability to provide parcellations in donor-native space (rather than MNI space).

Documentation has been updated to reflect all new features!

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0.0.5

24 Mar 20:32
@rmarkello rmarkello
0.0.5
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0.0.5

0.0.5 (March 24, 2020)

This release includes quite a bit of new functionality, including:

  • Several new gene/sample normalization methods,
  • A fetcher / new loader functions for RNAseq data (abagen.fetch_rnaseq()),
  • The ability to use RNAseq data for selecting probes (probe_selection='rnaseq), and
  • A new donor_probes parameter for abagen.get_expression_data() to control how probe selection is performed

Check out the documentation for more details!

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0.0.4

26 Feb 21:22
@rmarkello rmarkello
0.0.4
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0.0.4

0.0.4 (February 26, 2020)

A new release with a small bugfix (#134) and a small fix-fix (#133)!

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0.0.3

26 Nov 18:26
@rmarkello rmarkello
0.0.3
c2d9a64
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0.0.3

0.0.3 (November 26, 2019)

A new release with some added features but primarily a good bit of re-arranging
in the primary abagen.get_expression_data() workflow. Notable changes
include:

  • New parameters region_agg, agg_metric, sample_norm, and gene_norm (the latter of which supplants donor_norm), controlling how microarray samples are normalized and aggregated across donors;
  • Large reductions in memory usage (#130), such that the primary workflow should only use ~2GB of RAM at its peak; and,
  • Migration to CircleCI for all testing purposes!

Special thanks to Vincent Bazinet (@VinceBaz), Ellen Wang (@Ellen8780), Romke Hannema (@rhannema), and Anthony Gifuni (@gifuni) for their contributions!

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0.0.2

20 Sep 01:05
@rmarkello rmarkello
0.0.2
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0.0.2

0.0.2 (September 19, 2019)

This release comes with a lot of new changes, including:

  • Several new arguments for abagen.get_expression_data(), including new probe selection methods, donor normalization techniques, and hemispheric mirroring of tissue samples;
  • A command-line version of the primary workflow accessible via the abagen command;
  • Improved data handling, using $HOME/abagen-data as the default storage location for data from the AHBA;
  • New functionality for fetching raw AHBA donor MRI scans;
  • Zenodo integration to make it easy to cite abagen; and,
  • Massive documentation overhauls, with a dramatically updated user guide and API reference!

Special thanks to Golia Shafiei (@gshafiei), Ying-Qiu Zheng (@yingqiuz), James Frierson (@JamesFrierson1), and Arda Kosar (@abkosar) for their contributions.

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