PLAR: Pipeline for lncRNA annotation from RNA-seq data
Due to several requests, we are releasing an assingment of orthologs, determined using the same methods used in Hezroni et al. (BLAST, Whole Genome Alignment (WGA), and...910 days ago
ARCS: scaffolding genome drafts with linked reads
ARCS, an application that utilizes the barcoding information contained in linked reads...ix-fold, using moderate coverage (25-fold) Chromium data. We expect ARCS to have broad...the barcoding information contained in linked read data for...2313 days ago
Mesquite: A modular system for evolutionary analysis
Mesquite is modular, extendible software for evolut...logists organize and analyze comparative data about organisms. Its emphasis is on phylogenetic analysis, but some of its modules conc...others do non-phylogenetic multivariate analysis. Because it is modular, the a...2306 days ago
MMseqs2.0: ultra fast and sensitive protein search and clustering suite
MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cl...Soeding J. MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets. Nature Biotechnology, doi:...2297 days ago
2282 days ago
d3Network:Tools for creating D3 JavaScript network, tree, dendrogram, and Sankey graphs from R.
Mike Bostock’s D3.js is great for creating interactive network graphs with JavaScript....network graphs from R. The main idea is that you should able to take an R data fra...2282 days ago
ALPHA: A Toolkit for Automated Local Phylogenomic Analyses
Automated Local Phylogenomic Analyses, or ALPHA, is a python-...itive user interface for phylogenetic analyses and data visualization. It has four di...hat are useful for different types of phylogenetic analysis: RAxML, File Converter, MS Co...2298 days ago
EWAS: epigenome-wide association study software 2.0
EWAS2.0 can analyze EWAS data and identify the association between epigenetic variations and disease/p...e (meplotype) association study; and (3) epigenome-wide association meta-analysis.2298 days ago
SciLifeLab tutorial for bioinformatics analysis !
SciLifeLab is a national center for molecular biosciences wit...Uppsala Introduction to Bioinformatics Using NGS Data 2015 February - Uppsala ...ala2017 Mars - Uppsala Single cell RNA sequencing analysis 2017 October - Uppsala2271 days ago
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