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, and...2412 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/pacb...2408 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...2408 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 ("du...2407 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 and...2406 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. The...2406 days ago
2406 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 form...2406 days ago
phyloXML: XML for evolutionary biology and comparative genomics
...hylogenetic trees (or networks) and associated data. PhyloXML provides elements f...eroperability between various applications and databases. Furthermore, both due t...domain specific applications are ensured. The structure of phyloXML is described by&n...2406 days ago
Scripts for the analysis of HGT in genome sequence data.
Scripts for the analysis of HGT in genome sequence data2405 days ago