2418 days ago
Taxoblast : Taxoblast is a pipeline to identify contamination in genomic sequence
Modern genome sequencing strategies are highly sensitive to contamination making the detection of foreign DNA seque...e, for the post-assembly detection of contaminating sequences in the published genome...2415 days ago
coursera genome assembly tutorial
Solutions to Coursera Genome Sequencing (Bioinformatics II)2413 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It t..., it takes about 3 minutes to assemble a bacterial genome. Under the default setting, m...confirms that at least for high-coverage bacterial genomes...2411 days ago
Opera: An optimal genome scaffolding program
...for the assembly of large and complex genomes.Song Gao, Denis Bertrand, Bu...lding of large, repeat-rich eukaryotic genomes with performance guarantees. Genome Biology, May 2016, doi: 10.1186/s1305...nd sequences. Journal of Computational Biology, Sept. 2011, doi:10.1089/cmb....2411 days ago
Oxford Nanopore Sequencing, Hybrid Error Correction, and de novo Assembly of a Eukaryotic Genome
Monitoring the progress of DNA molecules through a membrane pore has been postulated as...able that we used for sequencing the S. cerevisiae genome. To make use of these data, w...ore complete representation of the features of the genome...2409 days ago
Computational Genomics: Applied Comparative Genomics
The primary goal of the course is for students to be grounded in theory and leave the c...uantitative approaches for comparing and analyzing genomes starting from raw sequencing...e across the tree of life. The topics will include genome...2409 days ago
2409 days ago
Ribbon: Visualizing complex genome alignments and structural variation:
Ribbon can be used for long reads, short reads, paired-end reads, and assembly/genome alignments. Instructions for each data format are available by clicking on "instructions" in each tab on th...2409 days ago
phyloXML: XML for evolutionary biology and comparative genomics
phyloXML (example) is an XML language designed to describe phylogenetic trees (or networks) and associated data. PhyloXML provides elements for commonly...2409 days ago