版本1.32.0变化- - - - - - - - - - - - - - - - - - - - - - - - BUG修复o(诉1.31.2)移除弃用org.Pf.plasmo。数据库信息o(诉1.31.1)负载OrganismDb对象即使不是搜索路径。见https://support.bioconductor.org/p/134141/版本1.18.0变化- - - - - - - - - - - - - - - - - - - - - - - - BUG修复o避免重复因子水平为cdsBy和朋友在元数据压缩;之前引入错误的空元数据版本变化1.16.0 - - - - - - - - - - - - - - - - - - - - - - - - o添加新特性检查失踪.taxIdToOrgDb OrgDb包中()o makeOrganismDbFromBiomart添加“OrgDb”参数()修改o修改错误消息在.taxIdToOrgDb()版本1.14.0变化- - - - - - - - - - - - - - - - - - - - - - - -修改o代替www.biomart.org与www.ensembl.org o进口“mcols”、“mcols < -“从S4Vectors o遵循GenomicFeatures名称更改:::.set_group_names()添加biomaRt阿rtracklayer“建议”;用于单元测试/手册页o elementLengths改名为中- > elementNROWS S4Vectors o requireNamespace替换需要()()o调整应对“val”- >“过滤器”重命名GenomicFeatures o更新单元测试,以反映新的数据包含了o负载RSQLite在单元测试;不再从AnnotationDbi:自由:从AnnotationDbi dbFileConnect o使用新导出的函数相关的选择()和建筑注释包版本1.10.0变化- - - - - - - - - - - - - - - - - - - - - - - -新特性o OrganismDb对象现在有方法最合理TxDb方法。如果你能做到TxDb,它还应该为一个OrganismDb工作。o支持dbconn()和dbfile出口getTxDbIfAvailable阿()()对于那些可以方便的访问底层TxDb对象。BUG修复o use.names参数现在使用exonsBy和相关方法。版本1.4.0变化- - - - - - - - - - - - - - - - - - - - - - - -阿新功能基因方法现在这些对象BUG修复o安全参数处理为“通过”参数访问器,使用它。版本1.4.0变化- - - - - - - - - - - - - - - - - - - - - - - - o键方法现在有新的参数新特性允许更复杂的过滤。 BUG FIXES o cols arguments and methods will now be columns arguments and methods o stricter argument checking for select and friends CHANGES IN VERSION 1.2.0 ------------------------ NEW FEATURES o There are now range based accessors (transcripts, exons, cds) that can be used to get data out of OrganismDb objects. o There are now list oriented range based accesors (transcriptsBy, exonsBy, cdsBy) that can be used to get data out of OrganismDb objects o All these new ranged based operations allow users to extract additional metadata via mcols slot in the resulting object. The extra data is specified via the columns argument to these methods. SIGNIFICANT USER-VISIBLE CHANGES o New range based accessors allow you to get data back organized by range. Please see associated manual pages and vignette for more details. BUG FIXES o Show method for these objects is improved. o Documentation, tests and vignette updates for new methods. CHANGES IN VERSION 1.0.0 ------------------------ NEW FEATURES o OrganismDbi is for the creation and support of a new class of super-annotation packages o 'Stock' OrganismDbi packages are available for human mouse and rat with the 2.11 release of Bioconductor. o OrganismDbi has functionality for generating these packages. o OrganismDbi has methods that allow these packages to function. o OrganismDbi works by combining resources from Annotation packages that implement the four methods needed for a "select" style interface. The essense of this is detailed in the AnnotationDbi package, along with base classes etc.