NEWS.md

basejump 0.4.19 (2021-06-20)

Minor changes

basejump 0.4.18 (2021-05-18)

Minor changes

basejump 0.4.17 (2021-03-12)

Minor changes

basejump 0.4.16 (2021-03-02)

Minor changes

basejump 0.4.15 (2021-02-26)

Minor changes

basejump 0.4.14 (2021-02-24)

Minor changes

basejump 0.4.13 (2021-02-22)

Minor changes

basejump 0.4.12 (2021-02-22)

Minor changes

basejump 0.4.11 (2021-02-21)

Minor changes

basejump 0.14.10 (2021-02-21)

Minor changes

basejump 0.14.9 (2021-02-17)

Minor changes

basejump 0.14.8 (2021-02-13)

Minor changes

basejump 0.14.7 (2021-02-12)

Minor changes

basejump 0.14.6 (2021-02-12)

Minor changes

basejump 0.14.5 (2021-02-11)

Minor changes

basejump 0.14.4 (2021-02-11)

Minor changes

basejump 0.14.3 (2021-02-10)

New functions

basejump 0.14.2 (2021-02-09)

New functions

basejump 0.14.1 (2021-02-08)

Minor changes

basejump 0.14.0 (2021-02-06)

Reworked package to simply inherit and reexport functions from other Acid Genomics packages, rather than defining any code directly here.

Major changes

Minor changes

basejump 0.13.4 (2020-12-04)

Minor changes

basejump 0.13.3 (2020-11-24)

Minor changes

basejump 0.13.2 (2020-10-09)

Minor changes

basejump 0.13.1 (2020-10-07)

Minor changes

basejump 0.13.0 (2020-10-05)

Migrated some functions to AcidBase, AcidGenomes, AcidPlyr, and pipette packages.

Major changes

Minor changes

basejump 0.12.16 (2020-09-29)

Minor changes

basejump 0.12.15 (2020-09-25)

New classes

New functions

Minor changes

basejump 0.12.14 (2020-09-14)

New functions

basejump 0.12.13 (2020-08-25)

Minor changes

basejump 0.12.12 (2020-08-18)

New methods

basejump 0.12.11 (2020-08-13)

Minor changes

basejump 0.12.10 (2020-08-04)

Minor changes

basejump 0.12.9 (2020-07-24)

Minor changes

basejump 0.12.8 (2020-06-15)

Minor changes

basejump 0.12.7 (2020-05-22)

Minor changes

basejump 0.12.6 (2020-05-17)

Minor changes

basejump 0.12.5 (2020-05-11)

Minor changes

basejump 0.12.4 (2020-03-15)

Minor changes

basejump 0.12.3 (2020-02-24)

Minor changes

basejump 0.12.2 (2020-02-18)

Minor changes

basejump 0.12.1 (2020-01-30)

Major changes

Minor changes

basejump 0.12.0 (2020-01-20)

Major changes

basejump 0.11.24 (2020-01-08)

New functions

Minor changes

basejump 0.11.23 (2019-11-19)

Minor changes

basejump 0.11.22 (2019-11-11)

New functions

basejump 0.11.21 (2019-11-07)

Major changes

Bug fixes

basejump 0.11.20 (2019-10-24)

New reexports

basejump 0.11.19 (2019-10-23)

New functions

Minor changes

basejump 0.11.18 (2019-10-13)

Minor changes

basejump 0.11.17 (2019-10-09)

Minor changes

Disabled methods

basejump 0.11.16 (2019-09-25)

Minor changes

basejump 0.11.15 (2019-09-16)

Major changes

Minor changes

basejump 0.11.14 (2019-09-09)

Minor changes

basejump 0.11.13 (2019-09-06)

Major changes

Minor changes

basejump 0.11.12 (2019-09-03)

Minor changes

basejump 0.11.11 (2019-08-27)

Updated R dependency to 3.6.

New functions

Major changes

Minor changes

Deprecations

basejump 0.11.10 (2019-08-22)

Minor changes

basejump 0.11.9 (2019-08-21)

Minor changes

basejump 0.11.8 (2019-08-19)

New functions

Major changes

Minor changes

basejump 0.11.7 (2019-08-13)

Minor changes

basejump 0.11.6 (2019-08-12)

Minor changes

basejump 0.11.5 (2019-08-11)

New functions

Minor changes

basejump 0.11.4 (2019-08-07)

Major changes

Minor changes

basejump 0.11.3 (2019-07-30)

100th release!

Minor changes

basejump 0.11.2 (2019-07-29)

Minor changes

basejump 0.11.1 (2019-07-24)

Minor changes

basejump 0.11.0 (2019-07-22)

Start of new release series. Version bump reflects changes in dependency packages. See the acidtest, bioverbs, freerange, syntactic, and transformer release notes for more details.

basejump 0.10.12 (2019-07-18)

Minor changes

Deprecations

basejump 0.10.11 (2019-07-17)

Minor changes

basejump 0.10.10 (2019-06-08)

New functions

Major changes

Minor changes

basejump 0.10.9 (2019-05-29)

Minor changes

basejump 0.10.8 (2019-05-05)

Major changes

basejump 0.10.7 (2019-04-30)

New functions

basejump 0.10.6 (2019-04-29)

New functions

Minor changes

basejump 0.10.5 (2019-04-25)

Minor changes

basejump 0.10.4 (2019-04-22)

Major changes

Minor changes

basejump 0.10.3 (2019-04-07)

Minor changes

basejump 0.10.2 (2019-04-07)

Major changes

Minor changes

basejump 0.10.1 (2019-04-01)

New functions

Minor changes

basejump 0.10.0 (2019-03-28)

Major changes

Minor changes

basejump 0.9.16 (2019-03-23)

Minor changes

basejump 0.9.15 (2019-03-22)

Minor changes

basejump 0.9.14 (2019-03-18)

Minor changes

basejump 0.9.13 (2019-03-18)

Minor changes

basejump 0.9.12 (2019-03-11)

Major changes

Minor changes

basejump 0.9.11 (2019-02-25)

Minor changes

basejump 0.9.10 (2019-02-17)

Minor changes

basejump 0.9.9 (2019-02-11)

Minor changes

basejump 0.9.8 (2019-02-08)

Minor changes

basejump 0.9.7 (2019-01-23)

Minor changes

basejump 0.9.6 (2019-01-22)

Minor changes

Offloaded to brio

Offloaded to goalie

Deprecations

basejump 0.9.5 (2019-01-22)

Minor changes

Offloaded to brio

Offloaded to goalie

Deprecations

basejump 0.9.4 (2019-01-12)

Minor changes

basejump 0.9.3 (2019-01-08)

Minor changes

basejump 0.9.2 (2019-01-07)

This release defines the initial point where basejump becomes even more modular, offloading some functions to new brio, syntactic, and S4Transformer packages.

Note that all offloaded functions will continue to be reexported in basejump. If you notice a function that is missing and not correctly re-exported, please file an issue.

Note that S4Transformer has since been renamed to transformer.

Offloaded to S4Transformer

Offloaded to bb8

Offloaded to brio

Offloaded to goalie

Minor changes

basejump 0.9.1 (2018-12-22)

This release defines the initial point where basejump begins to import bioverbs.

Major changes

Minor changes

Documentation

basejump 0.9.0 (2018-12-12)

I bumped the release series from v0.8 to v0.9 because this represents a significant change to the internal codebase, where I have now switched to using my new goalie assert check engine from assertive.

New functions

Major changes

Minor changes

Deprecations

Documentation

basejump 0.8.8 (2018-12-03)

New functions

Major changes

basejump 0.8.7 (2018-12-01)

New functions

Minor changes

basejump 0.8.6 (2018-11-30)

Minor changes

basejump 0.8.5 (2018-11-29)

New functions

Deprecations

Minor changes

basejump 0.8.4 (2018-11-28)

New functions

Minor changes

basejump 0.8.3 (2018-11-25)

Minor changes

basejump 0.8.2 (2018-11-19)

Major changes

Migrating some additional base code that can be dispatched on either SummarizedExperiment or SingleCellExperiment from the bcbio R packages. We're going to split out some of the single-cell RNA-seq functionality into separate packages, since a lot of my work moving forward deals with the 10X Genomics Cell Ranger platform, rather than the bcbio-supported inDrops platform.

In particular:

Minor changes

basejump 0.8.1 (2018-11-15)

Major changes

The split-out sub-package approach isn't working quite right, so the code base has been consolidated back into a single basejump package. Development toward splitting the package will continue, but a conceptual re-imagining of how to organize the functions is needed.

basejump 0.8.0 (2018-11-11)

Major changes

This release is the beginning of an attempt to rework the basejump codebase a bit and make the package easier to unit test on Travis CI. bcbio R packages will be pinned to v0.7.2 during this development period.

Here we are working to split out the functionality of basejump into several, smaller sub-packages:

basejump 0.7.2 (2018-08-29)

New functions

Major changes

Minor changes

basejump 0.7.1 (2018-08-18)

New functions

Major changes

Minor changes

basejump 0.7.0 (2018-08-07)

In this release, we are migrating some of the S4 generics previously exported in the bcbioBase package. We are consolidating these functions here for simplicity and stability.

New functions

Major changes

basejump 0.6.4 (2018-08-03)

New functions

basejump 0.6.3 (2018-08-01)

Minor changes

basejump 0.6.2 (2018-07-31)

New functions

Major changes

Minor changes

basejump 0.6.1 (2018-07-21)

Minor changes

basejump 0.6.0 (2018-07-17)

Major changes

Migrated functions

Previously, these functions were exported in the bcbioBase package, but they provide non-bcbio-specific functionality, and should be included here in the basejump package instead:

Providing basic SummarizedExperiment class method support for counts.

Minor changes

basejump 0.5.11 (2018-07-09)

Minor changes

basejump 0.5.10 (2018-06-28)

Minor changes

basejump 0.5.9 (2018-06-12)

Minor changes

basejump 0.5.8 (2018-06-05)

Minor changes

Infrastructure changes

basejump 0.5.7 (2018-05-24)

Minor changes

basejump 0.5.6 (2018-05-19)

Minor changes

basejump 0.5.5 (2018-05-15)

Major changes

Minor changes

basejump 0.5.4 (2018-05-08)

basejump 0.5.3 (2018-04-30)

Minor changes

basejump 0.5.2 (2018-04-26)

Minor changes

basejump 0.5.1 (2018-04-16)

Minor changes

basejump 0.5.0 (2018-04-13)

New functions

ggplot2 themes

Major changes

Minor changes

basejump 0.4.0 (2018-03-22)

Major changes

Minor changes

Deprecations

basejump 0.3.1 (2018-02-19)

basejump 0.3.0 (2018-02-16)

basejump 0.2.1 (2018-02-07)

basejump 0.2.0 (2018-01-28)

basejump 0.1.10 (2017-12-20)

basejump 0.1.9 (2017-12-18)

basejump 0.1.8 (2017-12-14)

basejump 0.1.7 (2017-12-11)

basejump 0.1.6 (2017-12-06)

basejump 0.1.5 (2017-12-05)

basejump 0.1.4 (2017-12-04)

basejump 0.1.3 (2017-12-01)

basejump 0.1.2 (2017-11-30)

basejump 0.1.1 (2017-11-11)

basejump 0.1.0 (2017-10-23)

basejump 0.0.25 (2017-10-13)

basejump 0.0.24 (2017-10-10)

basejump 0.0.23 (2017-09-14)

basejump 0.0.22 (2017-09-08)

basejump 0.0.21 (2017-09-01)

basejump 0.0.20 (2017-08-16)

basejump 0.0.19 (2017-07-24)

basejump 0.0.18 (2017-07-24)

basejump 0.0.17 (2017-07-11)

basejump 0.0.16 (2017-06-28)

basejump 0.0.15 (2017-06-18)

basejump 0.0.14 (2017-06-13)

basejump 0.0.13 (2017-06-12)

basejump 0.0.12 (2017-05-25)

basejump 0.0.11 (2017-05-18)

basejump 0.0.10 (2017-05-14)

basejump 0.0.9 (2017-05-13)

basejump 0.0.8 (2017-05-13)

basejump 0.0.7 (2017-0422)

basejump 0.0.6 (2017-04-14)

basejump 0.0.5 (2017-04-12)

basejump 0.0.4 (2017-04-07)

basejump 0.0.3 (2017-03-22)

basejump 0.0.2 (2017-03-22)

basejump 0.0.1 (2017-03-17)



acidgenomics/basejump documentation built on June 21, 2021, 9:43 a.m.