Genomicus: genome browser that enables users to navigate in genomes in several dimensions
Genomicus is a genome browser that enables users to navigate in genomes in several...n all the ancestral species within the phylogenetic range of interest. All the data on extant species displayed i...2416 days ago
CHSMiner: a GUI tool to identify chromosomal homologous segments
Background The identification of chromosomal homologo...software on both simulated and biological realistic data and compared its performance with similar existing software and data source. Conclusion CHSM...2416 days ago
Taxoblast : Taxoblast is a pipeline to identify contamination in genomic sequence
Modern genome sequencing strategies are highly sensitive to contamination making th...l complement to standard bioinformatics analyses prior to submission of genomic data to public repositories. Our a...2412 days ago
TULIP - The Uncorrected Long read Itegration Pipeline
#Running TULIP (The Uncorrected Long-read Integration Process), version 0.4 late 20...nd outputs a graph and scaffold structures. Tulipbulb adds long read sequencing data to these. https://gi...2412 days ago
poRe: an R package for the visualization and analysis of nanopore sequencing data
Motivation: The Oxford Nanopore MinION device repre...n and build a suite of tools specifically for MinION data. Results: Here we prese..., summarize and visualize MinION nanopore sequencing data. As a package for R, poRe has...2412 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&r...ed in the quality assement of the raw or event level data, and want to jump straight to...2412 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
Miniasm is a very fast OLC-based&n...xford Nanopore (ONT) bacterial data sets. Including the mapping s...m assembles 9 out of 12 PacBio datasets and 3 out of 4 ONT datase...ate. In addition, on the whole data set (assembled in ~30 min), t...z | tar zxf - ln -s selfSampleData/pacbio_filtered.fastq reads.f...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 wit...2408 days ago
simNGS and simLibrary – Software for Simulating Next-Gen Sequencing Data
simNGS is software for simulating observations from Illumina sequencing machines us...rporate effects from more esoteric sources of noise that may be present in real data ("dust", bubbles, merged clus...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 membr...ncing the S. cerevisiae genome. To make use of these data, we developed a novel open-so...tion of the nanopore reads using complementary MiSeq data and produce a de novo assembl...2406 days ago