ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data
...nts in the underlying library of methods, and providing a novel set of standalone...enies using a single command, (ii) testing and visualizing evolutionary models,...nt size or including duplications, and (iv) providing seamless integration with...2328 days ago
Genome assembly stats plotting
...ular plot that summarises most commonly used assembly metrics in a single visualisation. Each of these pre...rom a common (JSON) data structure, allowing toggling between alternative views, and each can be applied t...2319 days ago
Protein Subcellular Localization Prediction
...hinery. Computational tools offer an attractive complement to time-consuming and laborious experimental methods. http://abi.inf.uni-tuebingen.de/Services/YLoc/webloc.cgi2318 days ago
2317 days ago
Multi-CAR: a tool of contig scaffolding using multiple references
we design a simple heuristic method to further revise our single reference-based scaffolding tool CAR into a new one called Multi-CAR such that it can utilize multiple complete geno...2313 days ago
PhyloGrapher - Graph Visualization Tool
PhyloGrapher is a program designed to visualize and study evolutionary relationships within families...of elements. In general, it is possible to use PhyloGrapher to visualize any type of relations...2312 days ago
Reference-free prediction of rearrangement breakpoint reads
...tive reads. Moreover, evaluation on a real prostate cancer dataset shows that the proposed method predicts more fusion transcripts correctly than previous approaches, and yet produc...2311 days ago
MMseqs2.0: ultra fast and sensitive protein search and clustering suite
...ensed software implemented in C++ for Linux, MacOS, and (as beta version, via cygwin) Windows. The softwar...ter than BLAST. At 100 times its speed it achieves almost the same sensitivity. It can perform profile sea...2297 days ago
GMOL: An Interactive Tool for 3D Genome Structure Visualization
GMOL was developed based upon our multi-scale approach that allows a user to scale between six separate levels within the genome. With GMOL, a user can choose any unit at any scale and scale it up or down to visualize its structure and retrieve corresponding genome sequences.2298 days ago
repeat-aware: Repeat aware scaffolding evaluation framework by Igor Mandric
...olding validation is also a challenging one. One of the main issues which hinders from an adequate scaffolding evaluation are genome repeats. The previous standard for evaluation&nb...2298 days ago