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 seq...complement to standard bioinformatics analyses prior to submission of genomic data to...2416 days ago
TULIP - The Uncorrected Long read Itegration Pipeline
#Running TULIP (The Uncorrected Long-read Integration Process), version 0.4 late 2016 (European eel) TULIP curre...d outputs a graph and scaffold structures. Tulipbulb adds long read sequencing data to...2416 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 tech...and build a suite of tools specifically for MinION data. Results: Here we prese...summarize and visualize MinION nanopore sequencing data. A...2416 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...;re not interested in the quality assement of the raw or event level data, a...2416 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...ford Nanopore (ONT) bacterial data sets. Including the mapping s...assembles 9 out of 12 PacBio datasets and 3 out of 4 ONT datase...te. In addition, on the whole data set (assembled in ~30 min), t...| tar zxf - ln -s selfSampleData/pa...2412 days ago
RITA: Rapid identification of high-confidence taxonomic assignments for metagenomic data
RITA is a standalone software package and Web server for taxonomic assignment of metagenomic sequence reads. By combining homology predictions from BLAST or UBLAST with...2412 days ago
simNGS and simLibrary – Software for Simulating Next-Gen Sequencing Data
simNGS is software for simulating observations from Illumina sequencing machines using the statistical models beh...porate effects from more esoteric sources of noise that may be present in real data ("...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 a...cing the S. cerevisiae genome. To make use of these data, we developed a novel open-so...ion of the nanopore reads using complementary MiSeq data an...2410 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...ve approaches for comparing and analyzing genomes starting from raw sequencing data. T...2410 days ago
2410 days ago