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prep v0.7.0
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alimanfoo committed May 14, 2021
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34 changes: 28 additions & 6 deletions README.md
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## Release notes


### 0.7.0

* Rename parameter "populations" to "cohorts" to be consistent with
sgkit terminology.


### 0.6.0

* Add `Ag3.gene_cnv()` and `Ag3.gene_cnv_frequencies()`.
* Improvements and maintenance to `Ag3.snp_effects()` and `Ag3.snp_allele_frequencies()`.

* Improvements and maintenance to `Ag3.snp_effects()` and
`Ag3.snp_allele_frequencies()`.


### 0.5.0

* Add `Ag3.snp_allele_frequencies()`.

* Add `Ag3.snp_effects()`.
* Add `Ag3.cnv_hmm()`, `Ag3.cnv_coverage_calls()` and `Ag3.cnv_discordant_read_calls()`.

* Add `Ag3.cnv_hmm()`, `Ag3.cnv_coverage_calls()` and
`Ag3.cnv_discordant_read_calls()`.

* Speed up test suite via caching.

* Add configuration for pre-commit hooks.


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### 0.4.1

* Explore workarounds to xarray memory issues in the `Ag3.snp_calls()` method.
* Explore workarounds to xarray memory issues in the `Ag3.snp_calls()`
method.


### 0.4.0

* Make public the `Ag3.open_genome()`, `Ag3.open_snp_sites()`, `Ag3.open_site_filters()` and `Ag3.open_snp_genotypes()` methods.
* Make public the `Ag3.open_genome()`, `Ag3.open_snp_sites()`,
`Ag3.open_site_filters()` and `Ag3.open_snp_genotypes()` methods.

* Add the `Ag3.cross_metadata()` method.
* Add `Ag3.site_annotations()` and `Ag3.open_site_annotations()` methods.

* Add `Ag3.site_annotations()` and `Ag3.open_site_annotations()`
methods.

* Add the `Ag3.snp_calls()` method.

* Improve unit tests.

* Improve memory usage.


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### 0.3.0

First release with basic functionality in the `Ag3` class for accessing Ag1000G phase 3 data.
First release with basic functionality in the `Ag3` class for
accessing Ag1000G phase 3 data.
2 changes: 1 addition & 1 deletion pyproject.toml
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[tool.poetry]
name = "malariagen_data"
version = "0.6.0"
version = "0.7.0"
description = "A package for accessing MalariaGEN public data."
authors = ["Alistair Miles <[email protected]>", "Chris Clarkson <[email protected]>"]
license = "MIT"
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