版本变化1.21.4重要用户可见的变化——文档网站现在可以在http://leekgroup.github.io/derfinderPlot/。它被更新主分支上的每一个承诺(bioc-devel)使用GitHub行动和pkgdown。变化版本1.21.3重要用户可见的变化——代码在所有例子已经重新整由于器::style_pkg(),看到dev / 02 _update。R详情。版本变化1.21.2用户可见的重大变化——从特拉维斯转向通过usethis GitHub的行动。——与pkgdown建立文档网站自动。- dev / 01 _setup补充道。R脚本。——现在使用README。限制型心肌病文件。版本变化1.21.1重要用户可见的变化——使用GenomeInfoDb:: getChromInfoFromUCSC()在可能的情况下,而不是来自biovizBase数据::hg19Ideogram hg19染色体的长度。版本变化1.19.3重要用户可见的变化——添加了一个新闻。md文件跟踪更改方案。1.17.2版本新特性的变化——在//www.anjoumacpherson.com/developers/package-guidelines/添加ORCID之后的变化描述的变化版本1.15.1重要bob电竞体育官网用户可见的变化——使用BiocManager变化版本1.13.5 BUG修复-修正了plotCluster()它是如何从biovizBase加载hg19IdeogramCyto对象包中。 Changes in version 1.13.4 BUG FIXES - Fixed an issue with a call to GenomicRanges::gaps() that affected how the introns were plotting in plotRegionCoverage() when the underlying data has a specifying start and end of the chromosome (that is, a seqinfo() with seqlengths specified). Thanks to Emily E Burke for reporting this issue https://github.com/emilyburke. Changes in version 1.11.2 SIGNIFICANT USER-VISIBLE CHANGES - Vignette now uses the new BiocStyle::html_document() that was recently released. Changes in version 1.7.10 SIGNIFICANT USER-VISIBLE CHANGES - Help pages now document advanced arguments. Changes in version 1.7.8 BUG FIXES - Updated links to BrainSpan. Issue reported by Steve Semick https://github.com/SteveSemick. Changes in version 1.7.1 SIGNIFICANT USER-VISIBLE CHANGES - Dropped defunct functions. Changes in version 1.5.8 BUG FIXES - plotRegionCoverage() used to take into account the strand of the regions for finding transcripts that overlapped the regions. This was not a problem with DERs from derfinder since they have strand * by default but it is a problem when using it with stranded regions. - plotCluster() will also now ignore strand for finding neighboring regions. Changes in version 1.5.4 SIGNIFICANT USER-VISIBLE CHANGES - Only use distance if it's not NA in plotRegionCoverage() Changes in version 1.3.4 SIGNIFICANT USER-VISIBLE CHANGES - Dropped tMatrix() because it was a confusing plot and also lead to build errors. Changes in version 1.3.3 NEW FEATURES - Added the function tMatrix() which uses a GRanges object that has a variable of interest to compute t-Statistics between bins of the genome. For each bin, the values of the variable of interest from the regions overlapping the bin are used. We use t-Statistics instead of correlation because not all bins will have the same number of regions. This type of plot is similar to interaction plots made for HiC data. Changes in version 1.3.2 NEW FEATURES - Added the vennRegions() function to visualize how many regions overlap known exons, introns, intergenic regions, none of them or several of these groups. Changes in version 1.3.1 SIGNIFICANT USER-VISIBLE CHANGES - Deprecated functions with underscores in their names in favor of camelCase functions. This was done to simplify the package. Changes in version 1.1.6 SIGNIFICANT USER-VISIBLE CHANGES - Adapted to work with bumphunter version >= 1.7.6 Changes in version 1.1.3 BUG FIXES - Adapted plotCluster() and plotOverview() to derfinder 1.1.5 Changes in version 0.99.0 NEW FEATURES - Preparing to submit to Bioconductor. - Added tests and vignette. SIGNIFICANT USER-VISIBLE CHANGES - plotOverview() and plotCluster() can now plot FWER adjusted p-values if calculated with derfinder::mergeResults() Changes in version 0.0.4 SIGNIFICANT USER-VISIBLE CHANGES - Hid some arguments in plotCluster() and plotOverview() as advanced just like in derfinder v0.0.74 BUG FIXES - Improved the speed in plotRegionCoverage() then txdb is specified. Also fixed the introns on the gene track. Changes in version 0.0.3 SIGNIFICANT USER-VISIBLE CHANGES - plotRegionCoverage() now has a txdb argument. When specified, this function will extract the transcript information needed and display the transcripts. Changes in version 0.0.1 SIGNIFICANT USER-VISIBLE CHANGES - Moved plotting functions from derfinder into this package