\n
Obtaining and Utilizing TxDb Objects
\n
list(name = \u201cMarc Carlson\u201d)\n list(name = \u201cPatrick Aboyoun\u201d)\n list(name = \u201cHerv<U+00E9> Pag<U+00E8>s\u201d)\n list(name = \u201cSeth Falcon\u201d)\n list(name = \u201cMartin Morgan\u201d)
\n-
Wednesday, December 10, 2025
\n+
Friday, November 08, 2024
\n
\n
Introduction
\n
The GenomicFeatures package implements the TxDb container for\n storing transcript metadata for a given organism. A TxDb object\n stores the genomic positions of the 5\u2019 and 3\u2019 untranslated regions\n (UTRs), protein coding sequences (CDSs), and exons for a set of mRNA\n@@ -563,15 +563,15 @@\n ## Matrix products: default\n ## BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.12.0 \n ## LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.12.0\n ## \n ## locale:\n ## [1] C\n ## \n-## time zone: /usr/share/zoneinfo/Etc/GMT+12\n+## time zone: /usr/share/zoneinfo/Etc/GMT-14\n ## tzcode source: system (glibc)\n ## \n ## attached base packages:\n ## [1] stats graphics grDevices utils datasets methods base \n ## \n ## other attached packages:\n ## [1] markdown_1.12 knitr_1.48 \n", "details": [{"source1": "html2text {}", "source2": "html2text {}", "unified_diff": "@@ -1,12 +1,12 @@\n *\b**\b**\b**\b**\b**\b* O\bOb\bbt\bta\bai\bin\bni\bin\bng\bg a\ban\bnd\bd U\bUt\bti\bil\bli\biz\bzi\bin\bng\bg T\bTx\bxD\bDb\bb O\bOb\bbj\bje\bec\bct\bts\bs *\b**\b**\b**\b**\b**\b*\n *\b**\b**\b**\b**\b* l\bli\bis\bst\bt(\b(n\bna\bam\bme\be =\b= ?\b\u201cM\bMa\bar\brc\bc C\bCa\bar\brl\bls\bso\bon\bn?\b\u201d)\b) l\bli\bis\bst\bt(\b(n\bna\bam\bme\be =\b= ?\b\u201cP\bPa\bat\btr\bri\bic\bck\bk A\bAb\bbo\boy\byo\bou\bun\bn?\b\u201d)\b) l\bli\bis\bst\bt(\b(n\bna\bam\bme\be =\b=\n ?\b\u201cH\bHe\ber\brv\bv<\b\b> P\bPa\bag\bg<\b\b>s\bs?\b\u201d)\b) l\bli\bis\bst\bt(\b(n\bna\bam\bme\be =\b= ?\b\u201cS\bSe\bet\bth\bh F\bFa\bal\blc\bco\bon\bn?\b\u201d)\b) l\bli\bis\bst\bt(\b(n\bna\bam\bme\be =\b= ?\b\u201cM\bMa\bar\brt\bti\bin\bn\n M\bMo\bor\brg\bga\ban\bn?\b\u201d)\b) *\b**\b**\b**\b**\b*\n-*\b**\b**\b**\b* W\bWe\bed\bdn\bne\bes\bsd\bda\bay\by,\b, D\bDe\bec\bce\bem\bmb\bbe\ber\br 1\b10\b0,\b, 2\b20\b02\b25\b5 *\b**\b**\b**\b*\n+*\b**\b**\b**\b* F\bFr\bri\bid\bda\bay\by,\b, N\bNo\bov\bve\bem\bmb\bbe\ber\br 0\b08\b8,\b, 2\b20\b02\b24\b4 *\b**\b**\b**\b*\n *\b**\b**\b**\b**\b**\b* I\bIn\bnt\btr\bro\bod\bdu\buc\bct\bti\bio\bon\bn *\b**\b**\b**\b**\b**\b*\n The GenomicFeatures package implements the TxDb container for storing\n transcript metadata for a given organism. A TxDb object stores the genomic\n positions of the 5\u2019 and 3\u2019 untranslated regions (UTRs), protein coding\n sequences (CDSs), and exons for a set of mRNA transcripts. The genomic\n positions are stored and reported with respect to a given genome assembly. TxDb\n objects have numerous accessors functions to allow such features to be\n@@ -290,15 +290,15 @@\n ## Matrix products: default\n ## BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.12.0\n ## LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.12.0\n ##\n ## locale:\n ## [1] C\n ##\n-## time zone: /usr/share/zoneinfo/Etc/GMT+12\n+## time zone: /usr/share/zoneinfo/Etc/GMT-14\n ## tzcode source: system (glibc)\n ##\n ## attached base packages:\n ## [1] stats graphics grDevices utils datasets methods base\n ##\n ## other attached packages:\n ## [1] markdown_1.12 knitr_1.48\n"}]}, {"source1": "./usr/lib/R/site-library/GenomicFeatures/doc/GenomicFeatures.md", "source2": "./usr/lib/R/site-library/GenomicFeatures/doc/GenomicFeatures.md", "unified_diff": "@@ -2,15 +2,15 @@\n title: \"Obtaining and Utilizing TxDb Objects\"\n author:\n - name: Marc Carlson\n - name: Patrick Aboyoun\n - name: Herv\u00e9 Pag\u00e8s\n - name: Seth Falcon\n - name: Martin Morgan\n-date: \"Wednesday, December 10, 2025\"\n+date: \"Friday, November 08, 2024\"\n package: GenomicFeatures\n vignette: |\n %\\VignetteIndexEntry{Obtaining and Utilizing TxDb Objects}\n %\\VignetteEngine{knitr::rmarkdown}\n %\\VignetteEncoding{UTF-8}\n %\\VignetteDepends{GenomicFeatures,TxDb.Hsapiens.UCSC.hg19.knownGene,BSgenome.Hsapiens.UCSC.hg19}\n %\\VignetteKeywords{annotation, database}\n@@ -732,15 +732,15 @@\n ## Matrix products: default\n ## BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.12.0 \n ## LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.12.0\n ## \n ## locale:\n ## [1] C\n ## \n-## time zone: /usr/share/zoneinfo/Etc/GMT+12\n+## time zone: /usr/share/zoneinfo/Etc/GMT-14\n ## tzcode source: system (glibc)\n ## \n ## attached base packages:\n ## [1] stats graphics grDevices utils datasets methods base \n ## \n ## other attached packages:\n ## [1] markdown_1.12 knitr_1.48 \n"}]}]}]}]}