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rnaSeqMap
rnaSeq secondary analyses
Bioconductor version: Development (2.14)
The rnaSeqMap library provides classes and functions to analyze the RNA-sequencing data using the coverage profiles in multiple samples at a time
Author: Anna Lesniewska <alesniewska at cs.put.poznan.pl>; Michal Okoniewski <michal at fgcz.ethz.ch>
Maintainer: Michal Okoniewski <michal at fgcz.ethz.ch>
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("rnaSeqMap")
To cite this package in a publication, start R and enter:
citation("rnaSeqMap")
Documentation
| R Script | rnaSeqMap primer | |
| Reference Manual |
Details
| biocViews | Annotation, DifferentialExpression, GeneExpression, RNASeq, ReportWriting, SAGE, Sequencing, Software, Transcription, Visualization |
| Version | 2.19.4 |
| In Bioconductor since | BioC 2.7 (R-2.12) |
| License | GPL-2 |
| Depends | R (>= 2.11.0), methods, Biobase, Rsamtools, GenomicAlignments |
| Imports | GenomicRanges, IRanges, edgeR, DESeq, DBI |
| Suggests | |
| System Requirements | |
| URL | |
| Depends On Me | ampliQueso |
| Imports Me | |
| Suggests Me |
Package Downloads
| Package Source | rnaSeqMap_2.19.4.tar.gz |
| Windows Binary | rnaSeqMap_2.19.3.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | rnaSeqMap_2.19.3.tgz |
| 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
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