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1 ·2ed9bf328394ab1d829859f93862dd11·1643128·gnu-r·optional·r-bioc-genomicfeatures_1.50.4+dfsg-1_all.deb1 ·ff81a6b588bf7d58e686d2bb89c52d6f·1645060·gnu-r·optional·r-bioc-genomicfeatures_1.50.4+dfsg-1_all.deb
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r-bioc-genomicfeatures_1.50.4+dfsg-1_all.deb
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20 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/R/20 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/R/
21 -rw-r--r--···0·root·········(0)·root·········(0)·····1058·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/R/GenomicFeatures21 -rw-r--r--···0·root·········(0)·root·········(0)·····1058·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/R/GenomicFeatures
22 -rw-r--r--···0·root·········(0)·root·········(0)··1156133·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/R/GenomicFeatures.rdb22 -rw-r--r--···0·root·········(0)·root·········(0)··1156133·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/R/GenomicFeatures.rdb
23 -rw-r--r--···0·root·········(0)·root·········(0)····10022·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/R/GenomicFeatures.rdx23 -rw-r--r--···0·root·········(0)·root·········(0)····10022·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/R/GenomicFeatures.rdx
24 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/doc/24 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/doc/
25 -rw-r--r--···0·root·········(0)·root·········(0)·····4269·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/doc/GenomicFeatures.R25 -rw-r--r--···0·root·········(0)·root·········(0)·····4269·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/doc/GenomicFeatures.R
26 -rw-r--r--···0·root·········(0)·root·········(0)····16695·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/doc/GenomicFeatures.Rmd26 -rw-r--r--···0·root·········(0)·root·········(0)····16695·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/doc/GenomicFeatures.Rmd
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30 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/extdata/30 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/extdata/
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33 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/extdata/GFF3_files/33 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2023-01-30·12:34:26.000000·./usr/lib/R/site-library/GenomicFeatures/extdata/GFF3_files/
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./usr/lib/R/site-library/GenomicFeatures/doc/GenomicFeatures.html
    
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92 <div·class="include-before">92 <div·class="include-before">
  
93 </div>93 </div>
  
94 <div·class="frontmatter">94 <div·class="frontmatter">
95 <div·class="title"><h1>Making·and·Utilizing·TxDb·Objects</h1></div>95 <div·class="title"><h1>Making·and·Utilizing·TxDb·Objects</h1></div>
96 <div·class="author"><h2>Marc·Carlson,·Patrick·Aboyoun,·Hervé·Pagès,·Seth·Falcon,·Martin·Morgan</h2></div>96 <div·class="author"><h2>Marc·Carlson,·Patrick·Aboyoun,·Hervé·Pagès,·Seth·Falcon,·Martin·Morgan</h2></div>
97 <div·class="date"><h3>Monday,·March·18,·2024</h3></div>97 <div·class="date"><h3>Tuesday,·March·19,·2024</h3></div>
98 </div>98 </div>
  
99 <div·class="body">99 <div·class="body">
100 <h2>Introduction</h2>100 <h2>Introduction</h2>
101 <p>The·<code>GenomicFeatures</code>·package·retrieves·and·manages101 <p>The·<code>GenomicFeatures</code>·package·retrieves·and·manages
102 transcript-related·features·from·the·UCSC·Genome102 transcript-related·features·from·the·UCSC·Genome
103 Bioinformatics\footnote{(<a·href="http://genome.ucsc.edu/)%7D">http://genome.ucsc.edu/)}</a>·and103 Bioinformatics\footnote{(<a·href="http://genome.ucsc.edu/)%7D">http://genome.ucsc.edu/)}</a>·and
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1 ******·Making·and·Utilizing·TxDb·Objects·******1 ******·Making·and·Utilizing·TxDb·Objects·******
2 *****·Marc·Carlson,·Patrick·Aboyoun,·Hervé·Pagès,·Seth·Falcon,·Martin·Morgan2 *****·Marc·Carlson,·Patrick·Aboyoun,·Hervé·Pagès,·Seth·Falcon,·Martin·Morgan
3 *****3 *****
4 ****·Monday,·March·18,·2024·****4 ****·Tuesday,·March·19,·2024·****
5 *****·Introduction·*****5 *****·Introduction·*****
6 The·GenomicFeatures·package·retrieves·and·manages·transcript-related·features6 The·GenomicFeatures·package·retrieves·and·manages·transcript-related·features
7 from·the·UCSC·Genome·Bioinformatics\footnote{(http://genome.ucsc.edu/)}·and7 from·the·UCSC·Genome·Bioinformatics\footnote{(http://genome.ucsc.edu/)}·and
8 BioMart\footnote{(http://www.biomart.org/)}·data·resources.·The·package·is8 BioMart\footnote{(http://www.biomart.org/)}·data·resources.·The·package·is
9 useful·for·ChIP-chip,·ChIP-seq,·and·RNA-seq·analyses.9 useful·for·ChIP-chip,·ChIP-seq,·and·RNA-seq·analyses.
10 suppressPackageStartupMessages(library('GenomicFeatures'))10 suppressPackageStartupMessages(library('GenomicFeatures'))
11 ##·Error·in·library("GenomicFeatures"):·there·is·no·package·called11 ##·Error·in·library("GenomicFeatures"):·there·is·no·package·called
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./usr/lib/R/site-library/GenomicFeatures/doc/GenomicFeatures.md
    
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1 ---1 ---
2 title:·"Making·and·Utilizing·TxDb·Objects"2 title:·"Making·and·Utilizing·TxDb·Objects"
3 author:·"Marc·Carlson,·Patrick·Aboyoun,·Hervé·Pagès,·Seth·Falcon,·Martin·Morgan"3 author:·"Marc·Carlson,·Patrick·Aboyoun,·Hervé·Pagès,·Seth·Falcon,·Martin·Morgan"
4 date:·"Monday,·March·18,·2024"4 date:·"Tuesday,·March·19,·2024"
5 package:·GenomicFeatures5 package:·GenomicFeatures
6 output:6 output:
7 ··BiocStyle::html_document:7 ··BiocStyle::html_document:
8 ····df_print:·paged8 ····df_print:·paged
9 ····toc_float:·true9 ····toc_float:·true
10 vignette:·>10 vignette:·>
11 ··%\VignetteIndexEntry{Making·and·Utilizing·TxDb·Objects}11 ··%\VignetteIndexEntry{Making·and·Utilizing·TxDb·Objects}
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