Web Apollo: a web-based genomic annotation editing platform
Web Apollo is the first instantaneous, collaborative genomic annotation editor available on...e more and more researchers sequencing new genomes. These researchers require tools to describe the functional fe...2497 days ago
Sequence - Evolution - Function; Computational Approaches in Comparative Genomics
Sequence - Evolution - Function is an introduction to the computational approaches that play a critical role in the emerging new branch of b...aches of functional genomics and of the potential and limitations of compu...2488 days ago
DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication
We developed a prokaryotic genome annotation pipeline, DFAST, that also supports genome sub...nd will also facilitate extensions for new functions and incorporation of new tools in the future. Availability...2387 days ago
poRe: an R package for the visualization and analysis of nanopore sequencing data
Motivation: The Oxford Nanopore MinION device represents a unique sequencing technolog...ations, the bioinformatics community will need to design and build a suite of tools specifically for MinION data....2378 days ago
IONiseR: tools for the quality assessment of data produced by Oxford Nanopore’s MinION sequencer
This package is intended to provide tools for the quality assessment of data produced by Oxford Nanopore’s MinION sequencer. It includes a functions to generate a number plots for...2378 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...pled with long-read error correctors and consensus tools, miniasm may also be useful t...ity assemblies. Minimap and miniasm are ultrafast tools for (i) mapping and (ii) asse...2375 days ago
Opera: An optimal genome scaffolding program
Opera (Optimal Paired-End Read Assembler) is a sequence assembly program (http://en.wikipedia.org/wiki/Sequence_assembly&...timal genomic scaffolds with high-throughput paired-end sequences. Journal of Compu...2374 days ago
Computational Genomics: Applied Comparative Genomics
The primary goal of the course is for students to be grounded in theory and leave the course empowered to conduct independent genomic analyses. We will study the leading compu...2373 days ago
2373 days ago
MinION_GC: An R script to do some QC on MinION data
Other tools focus on getting data out of the fastq or fast5 files, which is slow and computationally intensive. The benefit of this approach is that it works on a single, small, .txt summary file. S...2368 days ago