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| Original file line number | Diff line number | Diff line change |
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| @@ -0,0 +1,95 @@ | ||
| --- | ||
| title: v2.14.0 Release | ||
| date: 2024-08-28 14:03:05 | ||
| tags: ['release', 'jbrowse 2'] | ||
| --- | ||
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| This release adds some significant new features | ||
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| - Alignments track 'Group by' functionality: this features allows you to split | ||
| an alignments track by a specific tag such as RG or HP into multiple new | ||
| session tracks | ||
| - A new adapter type display sequences from a FASTA file such as `NC_000001.10` | ||
| in the user interface as `chr1`. This specifically targets the NCBI | ||
| "sequence_report.tsv" to do this renaming, and is called | ||
| `NcbiSequenceReportAliasAdapter` | ||
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|  | ||
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| Example screenshot after applying the new Alignments track "Group by" | ||
| functionality to group by the HP (haplotype) tag. Note that technically, each | ||
| group is launched as a separate new "session track" | ||
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| ## Downloads | ||
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| - [v2.14.0](https://github.com/GMOD/jbrowse-components/releases/tag/v2.14.0) | ||
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| To install JBrowse 2 for the web, you can download the link above, or you can | ||
| use the JBrowse CLI to automatically download the latest version. See the | ||
| [JBrowse web quick start](https://jbrowse.org/jb2/docs/quickstart_web) for more | ||
| details. | ||
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| yarn run v1.22.22 $ lerna-changelog --silent --silent --next-version 2.14.0 | ||
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| ## 2.14.0 (2024-08-28) | ||
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| #### :rocket: Enhancement | ||
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| - `core` | ||
| - [#4532](https://github.com/GMOD/jbrowse-components/pull/4532) De-duplicate | ||
| snackbar messages ([@cmdcolin](https://github.com/cmdcolin)) | ||
| - [#4516](https://github.com/GMOD/jbrowse-components/pull/4516) Add NCBI | ||
| sequence_report.tsv alias adapter, with ability to recode NCBI fasta files | ||
| to use UCSC style names ([@cmdcolin](https://github.com/cmdcolin)) | ||
| - Other | ||
| - [#4533](https://github.com/GMOD/jbrowse-components/pull/4533) Allow setting | ||
| sequenceType='pep' in ReferenceSequenceTrack configuration | ||
| ([@cmdcolin](https://github.com/cmdcolin)) | ||
| - [#4531](https://github.com/GMOD/jbrowse-components/pull/4531) Add | ||
| UnindexedFastaAdapter for fetching small plaintext FASTA files | ||
| ([@cmdcolin](https://github.com/cmdcolin)) | ||
| - [#4528](https://github.com/GMOD/jbrowse-components/pull/4528) Add | ||
| description config slot to reference sequence track | ||
| ([@cmdcolin](https://github.com/cmdcolin)) | ||
| - `app-core`, `core` | ||
| - [#4523](https://github.com/GMOD/jbrowse-components/pull/4523) Allow | ||
| plaintext GTF and VCF files greater than 512Mb | ||
| ([@cmdcolin](https://github.com/cmdcolin)) | ||
| - `core`, `product-core` | ||
| - [#4519](https://github.com/GMOD/jbrowse-components/pull/4519) Add "Group by" | ||
| method for alignments tracks ([@cmdcolin](https://github.com/cmdcolin)) | ||
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| #### :bug: Bug Fix | ||
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| - [#4535](https://github.com/GMOD/jbrowse-components/pull/4535) Fix crash after | ||
| navToLocString in some cases ([@cmdcolin](https://github.com/cmdcolin)) | ||
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| #### :house: Internal | ||
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| - Other | ||
| - [#4530](https://github.com/GMOD/jbrowse-components/pull/4530) Consolidate | ||
| gff3 adapter featureData routine, avoid Number-ifying null phase | ||
| ([@cmdcolin](https://github.com/cmdcolin)) | ||
| - `core` | ||
| - [#4518](https://github.com/GMOD/jbrowse-components/pull/4518) Don't send | ||
| displayModel to "rendering" components on server side | ||
| ([@cmdcolin](https://github.com/cmdcolin)) | ||
| - `__mocks__`, `app-core`, `core`, `embedded-core`, `product-core`, | ||
| `text-indexing`, `web-core` | ||
| - [#4513](https://github.com/GMOD/jbrowse-components/pull/4513) Add new eslint | ||
| rules (no-unnecessary-condition, no-unused-expressions, etc) and tsconfig | ||
| noUncheckedIndexedAccess ([@cmdcolin](https://github.com/cmdcolin)) | ||
| - `app-core`, `core`, `embedded-core`, `product-core`, `text-indexing`, | ||
| `web-core` | ||
| - [#4510](https://github.com/GMOD/jbrowse-components/pull/4510) Add biome lint | ||
| fixes ([@cmdcolin](https://github.com/cmdcolin)) | ||
| - `core`, `product-core`, `text-indexing` | ||
| - [#4508](https://github.com/GMOD/jbrowse-components/pull/4508) Use | ||
| @mui/x-charts-vendor for d3 upgrade | ||
| ([@cmdcolin](https://github.com/cmdcolin)) | ||
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| #### Committers: 2 | ||
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| - Colin Diesh ([@cmdcolin](https://github.com/cmdcolin)) | ||
| - Garrett Stevens ([@garrettjstevens](https://github.com/garrettjstevens)) Done | ||
| in 1.30s. |
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