Opera: An optimal genome scaffolding program
...ay 2016, doi: 10.1186/s13059-016-0951-y.Song Gao, Wing-Kin Sung, Niranjan Nagarajan. Opera: reconstructing optimal genomic scaffolds with high-throughput paired-end sequences. Journ...2371 days ago
dipSPAdes: Assembler for Highly Polymorphic Diploid Genomes.
...last few years, assembly of highly polymorphic (HP) diploid genomes remains chal...ult, there is a shortage of tools for assembling HP genomes from the next generat...first de Bruijn graph assembler, dipSPAdes, for HP genomes that significantly im...2348 days ago
TRRUST v2: an expanded reference database of human and mouse transcriptional regulatory interactions
...ently 8,972 (59.8%) regulatory relationships are known for mode of regulation. Search at : http://www.grnpedia.org/trrust/Network_search_form.php2347 days ago
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SEX-DETector: A Probabilistic Approach to Study Sex Chromosomes in Non-Model Organisms
SEX-DETector is a probabilistic method that relies on RNAseq data from a cross (parents and progeny of each sex) to infer autosomal and sex-linked genes (genes locate...2187 days ago
Cerulean: A hybrid assembly using high throughput short and long reads
...ed with bacterial genomes in mind. The method is fully described in Deshpande, V., Fung, E. D., Pham, S., & Bafna, V. (2013). Cerulean: A hybrid assembly using high throughput short and long reads. arXiv...2181 days ago
HALC: High throughput algorithm for long read error correction
HALC, a high throughput algorithm for long read error correction. HALC aligns the long reads to s...based alignment approach) HALC was able to obtain 6.7-41.1% higher throughput than the existing algorithm...2178 days ago
ASplice: a scalable and memory-efficient algorithm for de novo transcriptome assembly
...riptomes of non-model organisms. While algorithms are available that are specifically designed for performing transcriptome assembly from high-throughput sequencing data, they are v...2154 days ago