DiffSplice, tool to detect the differential splicing events with RNA-seq
The RNA transcriptome varies in response to cellular differentiation as well as environmental factors, and can be characterized by the Incoming search terms:RNA seqrna sequencingdiffsplicerna-seq naturerna seq toolsrna-seq analysisrna seq metrics rrna-seq pipelineRNA-seq splicingmRNA seq
Biocondutor Packages for Analyzing Chip-seq Data
BayesPeak - Bayesian Analysis of ChIP-seq Data, This package is an implementation of the BayesPeak algorithm for peak-calling in ChIP-seq data. Incoming search terms:Peakseqchip-seq datachip seqchip sequencingChIP-Seq data analysischip-seq peak callingchip-seq motifMeDIP peak callingchip-seq inputchipseq
Nebula – a web-server for advanced ChIP-seq data analysis.
Nebula is for both bioinformaticians and biologists. It is based on the Galaxy open source framework. Galaxy already Incoming search terms:chip-seq analysis pipelinechip seq analysis pipelinerna seq analysis workflowChIP-seqchip seq tool setchip-seq data analysis pipelineonline tool chipseqchip seq analysis pipeline galaxychip-seq graph toolsChIP-Seq pipeline
easyRNASeq: a bioconductor package for processing RNA-Seq data.
RNA sequencing is becoming a standard for expression profiling experiments and many tools have been developed in the past few years to analyze RNA-Seq Incoming search terms:r bioconductor next generation sequencingeasyrnaseq rbioconductor next generation sequencinguse of bioconductor to do next generation sequencing
Tools to remove adapter sequences from next-generation sequencing data
List of various tools to detect and trim adapter sequences from sequencing data. Cutadapt Cutadapt removes adapter sequences from high-throughput sequencing data. This is usually necessary when the read Incoming search terms:cutadapt paired endprimer adaptor clipping trimmingngs reads adapters primersflexible adapter removertrimming adapter sequencesToolstoremoveadaptersequencesfromnext-generationsequencingdata|GenomicsGatewayadapter ...
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BEDOPS: high-performance genomic feature operations
Tavaxy: Integrating Taverna and Galaxy workflows with cloud computing support.
RNA-SeQC: RNA-seq metrics for quality control and process optimization.
KISSPLICE: de-novo calling alternative splicing events from RNA-seq data
Eoulsan: a cloud computing-based framework facilitating high throughput sequencing analyses
CloudLCA: finding the lowest common ancestor in metagenome analysis using cloud computing
Cloud BioLinux: pre-configured and on-demand bioinformatics computing for the genomics community
Tools to remove adapter sequences from next-generation sequencing data
Yabi: An online research environment for grid, high performance and cloud computing.
