1. htSeqTools: high-throughput sequencing quality control, processing and visualization in R
- Author
-
Oscar Reina, Evarist Planet, Camille Stephan-Otto Attolini, Oscar Flores, and David Rossell
- Subjects
Statistics and Probability ,Quality Control ,genetic structures ,Computer science ,Immunoprecipitation ,media_common.quotation_subject ,genetic processes ,Saccharomyces cerevisiae ,computer.software_genre ,Biochemistry ,DNA sequencing ,Bioconductor ,Humans ,natural sciences ,Quality (business) ,Molecular Biology ,media_common ,Oligonucleotide Array Sequence Analysis ,Internet ,High-Throughput Nucleotide Sequencing ,Genomics ,Computer Science Applications ,Visualization ,Computational Mathematics ,Identification (information) ,ComputingMethodologies_PATTERNRECOGNITION ,Computational Theory and Mathematics ,Data mining ,computer ,Software - Abstract
Summary: We provide a Bioconductor package with quality assessment, processing and visualization tools for high-throughput sequencing data, with emphasis in ChIP-seq and RNA-seq studies. It includes detection of outliers and biases, inefficient immuno-precipitation and overamplification artifacts, de novo identification of read-rich genomic regions and visualization of the location and coverage of genomic region lists. Availability: www.bioconductor.org Contact: david.rossell@irbbarcelona.org Supplementary information: Supplementary data available at Bioinformatics online.
- Published
- 2011