ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data
ETE v3, featuring numerous improvements in the underlying library of methods, and providing a novel set of standalone tools to perform common tasks in comparative genomi...2276 days ago
Mesquite: A modular system for evolutionary analysis
...lyze comparative data about organisms. Its emphasis is on phylogenetic analysis, but some of its modules conc...ern population genetics, while others do non-phylogenetic multivariate analysis. Because it is modular, the a...2254 days ago
MMseqs2.0: ultra fast and sensitive protein search and clustering suite
...DF file (Thanks to pandoc!) Please cite: Steinegger M and Soeding J. MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets. Nature...2244 days ago
ALPHA: A Toolkit for Automated Local Phylogenomic Analyses
...e user interface for phylogenetic analyses and data visualization. It has four distinct modes that are useful for different types of phylogenetic analysis: RAxML, File Converter, MS Co...2245 days ago
EWAS: epigenome-wide association study software 2.0
...single marker association study; (2) epigenome-wide methylation haplotype (meplotype) association study; and (3) epigenome-wide association meta-analysis....2245 days ago
SciLifeLab tutorial for bioinformatics analysis !
...- UppsalaRNAseq tutorials R Programming Foundations for Life Scientists 2016 November - Uppsala2017 Mars - Uppsala Single cell RNA sequencing analysis 2017 October - Uppsala...2219 days ago
Flye: Fast and accurate de novo assembler for single molecule sequencing reads
...rlaps between reads and does not require them to be error-corrected. After the initial assembly, Flye performs an extra repeat classification and analysis step to improve the structura...2201 days ago
Ranbow: a haplotype assembler for polyploid genomes
...w hap: for haplotyping ranbow eval: for evaluating of the assemble haplotypes by gold standard (long) reads ranbow phylo: for the phylogenetic analysis2174 days ago
Gblocks: eliminates poorly aligned positions and divergent regions of a DNA or protein alignment
...ks eliminates poorly aligned positions and divergent regions of a DNA or protein alignment so that it becomes more suitable for phylogenetic analysis. This server implements the m...2173 days ago
BEAP: Blast Extension and Assembly Program
...inal sequence for constructing a "full length" sequence for functional analysis, or at least to obtain neighb...ng regions of the segment for SNP discovery and linkage disequilibrium analysis. The confidence of assembling...2164 days ago