1.5.2版本的变化(2020-12-04)-更新代码,查询运用biomaRt的新版本。——确保没有NAs tr2g_intron chrs_only = TRUE。-在BSgenome绕过问题::getSeq get_velocity_files DNAStringSet基因组时。改变版本1.1.4(2020-04-23)——现在tr2g_ *函数也可以提取转录组。——默认情况下,写tr2g tr2g_ *功能。tsv到磁盘。——写过滤GTF和GFF3文件。——可用基因和生物型记录列表运用可以查询数据()。——RefSeq GFF3 tr2g_gff3现在可以使用注释。变化版本1.1.3(2020-04-06)——允许筛选基因和转录tr2g生物型和get_velocity_files——允许去除支架,单从基因组注释版本1.1.2 tr2g变化(2020-02-06)-删除RcppParallel和数据。表依赖项,因此所有c++多线程-添加knee_plot函数改变了默认read_count_output太极拳= FALSE 1.1.1版的变化(2020-01-29)——排序农庄组织RNA速度以确保外显子以正确的顺序;将不再GRangesList内的每个元素。 - Export subset_annot, which makes sure that all chromosomes in the annotation are present in the genome prior to transcriptome extraction. Changes in version 0.99.25 (2019-09-11) - Added message to indicate when get_velocity_files is extracting exon-exon junctions. - Restored "separate" to be default isoform_action in get_velocity_files. Changes in version 0.99.24 (2019-09-06) - When sorting tr2g from file, now the file must be formatted in ways required by bustools. Changes in version 0.99.23 (2019-09-06) - Previous two version bumps did not accompany changes; those were used to trigger rebuilds on Bioconductor. - Added the functionality to use L-1 (L is read length) bases around exon-exon junction to better distinguish between spliced and unspliced transcripts for RNA velocity. - Fixed serious problem with get_velocity_file that counted reads mapping to exons of length between L-1 and 2(L-1) as from unspliced transcript. This was done by an reimplementation of the method to get flanked intronic ranges. - Changed default isoform_action to "collapse". - Make sure that all transcripts in tr2g.tsv from get_velocity_files are in the transcriptome. Changes in version 0.99.20 (2019-08-26) - Addressed Bioconductor review. Changes in version 0.99.19 (2019-07-23) - Finished get_velocity_files to generate files required for kallisto | bustools RNA velocity. Changes in version 0.99.0 (2019-06-21) - Submitted package to Bioconductor for review