- Home
- Bioconductor 3.0
- Experiment Packages
- RNAseqData.HNRNPC.bam.chr14
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("RNAseqData.HNRNPC.bam.chr14")
In most cases, you don't need to download the package archive at all.
RNAseqData.HNRNPC.bam.chr14
Aligned reads from RNAseq experiment: Transcription profiling by high throughput sequencing of HNRNPC knockdown and control HeLa cells
Bioconductor version: 3.0
The package contains 8 BAM files, 1 per sequencing run. Each BAM file was obtained by (1) aligning the reads (paired-end) to the full hg19 genome with TopHat2, and then (2) subsetting to keep only alignments on chr14. See accession number E-MTAB-1147 in the ArrayExpress database for details about the experiment, including links to the published study (by Zarnack et al., 2012) and to the FASTQ files.
Author: H. Pages
Maintainer: H. Pages <hpages at fhcrc.org>
Citation (from within R,
enter citation("RNAseqData.HNRNPC.bam.chr14")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("RNAseqData.HNRNPC.bam.chr14")
Documentation
| Reference Manual |
Details
| biocViews | ExperimentData, Homo_sapiens, RNAseqData |
| Version | 0.3.2 |
| License | LGPL |
| Depends | |
| Imports | |
| LinkingTo | |
| Suggests | GenomicAlignments, BiocInstaller |
| SystemRequirements | |
| Enhances | |
| URL | http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1147/ |
| Depends On Me | |
| Imports Me | |
| Suggests Me | BiocParallel, GenomicAlignments, GenomicFiles, roar, Rsamtools, SplicingGraphs |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | RNAseqData.HNRNPC.bam.chr14_0.3.2.tar.gz |
| Windows Binary | RNAseqData.HNRNPC.bam.chr14_0.3.2.zip |
| Mac OS X 10.6 (Snow Leopard) | RNAseqData.HNRNPC.bam.chr14_0.3.2.tgz |
| Mac OS X 10.9 (Mavericks) | RNAseqData.HNRNPC.bam.chr14_0.3.2.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
- RNA-Seq workflow: gene-level exploratory analysis and differential expression
- Changing genomic coordinate systems with rtracklayer::liftOver
- Mass spectrometry and proteomics data analysis
Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!
Contact us: support.bioconductor.org
Hosting provided by Fred Hutchinson Cancer Research Center
Copyright © 2003 - 2015, Bioconductor
