Results for "protein modeling"
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RASTtk : algorithm for building custom annotation pipelines and annotating batches of genomes
The RAST (Rapid Annotation using Subsystem Technology) annotation engine was built in 2008 to annotate bacterial an...offering a standard software pipeline for identifying genomic features (i.e., protein-...2928 days ago
SATSUMA : Highly sensitive whole-genome synteny alignments.
Satsuma is a whole-genome synteny alignment program. It takes two genomes, computes alignments, and then keeps only...gous, i.e. following the conserved order and orientation of features, such as protein...2912 days ago
PolyPhen-2: Prediction of functional effects of human nsSNPs
PolyPhen-2 (Polymorphism Phenotyping v2) is a tool which predicts possible impact of an amino acid substitution on the structure and function of a human protein using straightforward physical and comparative considerations.2903 days ago
- A free extensible and customizable gene annotation portal, a complete resource for learning about gene and protein function. http://biogps.org/#goto=welcome
2903 days ago
- DarkHorse is a bioinformatic method for rapid, automated ident...of phylogenetically atypical proteins on a genome-wide basis. It w...x (LPI) score for each genome protein. LPI scores are inversely pr...s of horizontally transferred proteins, but can also serve as an in...
2872 days ago
- Kaiju is a program for the taxonomic classification of metagenomic high-th...abase containing microbial and viral protein sequences. By default, Kaiju...icrobial subset of the non-redundant protein database nr used by NCBI BLAS...ptionally allowing mismatches in the protein...
2867 days ago
Bioinformatics tools and software
USEARCH >Extreme high-throughput sequence analysis. Orders of magnitude faster than BLAST. MUSCLE >Multi...ments for benchmarking. PALS >Whole-genome alignment. PREFAB >Protein...2859 days ago
AutoDock Vina: an open-source program for doing molecular docking.
AutoDock Vina is an open-source program for doing molecular docking. It was designed and implemented by D...cs Lab at The Scripps Research Institute. It is especially effective for protein-...1420 days ago
- RepeatModeler is a de-novo repeat family identification and modeling package. At the heart of RepeatModeler are two de-novo repeat finding programs ( RECON and RepeatScout ) which employ complementar...
2815 days ago
GeneValidator - Identify problems with predicted genes
GeneValidator helps in identifing problems with gene predictions and provide useful information extracted from anal...Priyam A, Bustos C & Wurm Y. 2016. GeneValidator: identify problems with protein-...2807 days ago
