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 c...2252 days ago
MMseqs2.0: ultra fast and sensitive protein search and clustering suite
...s a software suite to search and cluster huge protein sequence sets. MMseqs2 is ope...version, via cygwin) Windows. The software is designed to run on multiple cores and...er M and Soeding J. MMseqs2 enables sensitive protein sequence searching for the a...2237 days ago
EvidentialGene: tr2aacds, mRNA Transcript Assembly Software
EvidentialGene is a genome informatics project, "Evidence Directed Gene Construction for Eukaryotes", to construct h...or genes, from expressed sequences, genome assembly sequences, related species protei...2190 days ago
Gblocks: eliminates poorly aligned positions and divergent regions of a DNA or protein alignment
Gblocks eliminates poorly aligned positions and divergent regions of a DNA or protein alignment so that it becomes more suitable for phylogenetic analy... example output file showing the blocks selected from a protei...2165 days ago
GLEAN: an unsupervised learning system to integrate disparate sources of gene structure evidence
GLEAN is an unsupervised learning system to integrate disparate sources of gene structure evidence (gene model predictions, EST/protein genomic sequence alignments, SAGE/peptide tags, etc) to produce a consensus gene prediction, without prior training.2165 days ago
P_RNA_scaffolder: a fast and accurate genome scaffolder using paired-end RNA-sequencing reads
P_RNA_scaffolder, a fast and accurate tool using paired-end RNA-sequencing reads to scaf...This tool aims to improve the completeness of both protein-coding and non-coding genes....scaffolding human contigs, the structures of both protei...2155 days ago
2174 days ago
P_RNA_scaffolder: a fast and accurate genome scaffolder using paired-end RNA-sequencing reads
P_RNA_scaffolder is a novel scaffolding tool using Pair-end RNA-seq to scaffold genome fragments. The method is suit...another practical alternative to existing mate-pair_based approaches or other Protei...2068 days ago
STRUM: structure-based prediction of protein stability changes upon single-point mutation
STRUM is a method for predicting the fold stability change (ΔΔG) of protein molecules upon single-point nsSNP mutation...with low-resolution structure models from protein structure prediction, which h...e method and make it applicable to various protei...2065 days ago
GenomeThreader: Gene Prediction Software
GenomeThreader is a software tool to compute gene structure predictions. The gene structure predictions are calculated using a similarity-based approach where additional cDNA/EST and/or protei...2042 days ago