RNA-seq workflow: gene-level exploratory analysis and differential expression
Here we walk through an end-to-end gene-level RNA-seq differential expression workflow using Bioconductor packages. We will start from the FASTQ files, show how these were quantified to the reference transcripts, and prepare gene-level count datasets for downstream analysis. We will perform explo...Tags: RNA-seq, workflow, gene-level, exploratory, analysis, differential, expression
957 days ago
GenomeTools: The versatile open source genome analysis software
The GenomeTools genome analysis system is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single binary named gt. It is based on a C library named “libgenometools” which consists of several modules. I...Tags: GenomeTools, versatile, open, source, genome, analysis, software
841 days ago
Tags: kebabs, package, kernel, analysis, biological, sequences, Support, Vector, Machine, SVM, methods, kmer
811 days ago
InteractiVenn: a web-based tool for the analysis of sets through Venn diagrams
InteractiVenn, a more flexible tool for interacting with Venn diagrams including up to six sets. It offers a clean interface for Venn diagram construction and enables analysis of set unions while preserving the shape of the diagram. Set unions are useful to reveal differences and similarities amo...Tags: InteractiVenn, web-based, tool, analysis, sets, Venn, diagrams
694 days ago
pipesnake: bioinformatics best-practice analysis pipeline for phylogenomic reconstruction
ausarg/pipesnake is a bioinformatics best-practice analysis pipeline for phylogenomic reconstruction starting from short-read 'second-generation' sequencing data. The pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portab...Tags: pipesnake, bioinformatics, best-practice, analysis, pipeline, phylogenomic, reconstruction
92 days ago