CHSMiner: a GUI tool to identify chromosomal homologous segments
Background The identification of chromosomal homologous segments (CHS...one. It implements fast greedy search algorithm and rigorous statistical...th simulated and biological realistic data a...ce with similar existing software and data source. Conclusion CHSMiner...2421 days ago
Taxoblast : Taxoblast is a pipeline to identify contamination in genomic sequence
Modern genome sequencing strategies are highly sensitive to contamination making the detecti...useful complement to standard bioinformatics analyses prior to submission of genomic data to p...2416 days ago
TULIP - The Uncorrected Long read Itegration Pipeline
#Running TULIP (The Uncorrected Long-read Integration Process), version 0.4 late 2016 (Europ...eds, and outputs a graph and scaffold structures. Tulipbulb adds long read sequencing data to t...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 technolo...sign and build a suite of tools specifically for MinION data....ize, summarize and visualize MinION nanopore sequencing data. As...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...functions to generate a number plots for examining the statistics that we think...quality assement of the raw or event level data, and...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 no...Oxford Nanopore (ONT) bacterial data sets. Including the mapping s...asm assembles 9 out of 12 PacBio datasets and 3 out of 4 ONT datase...urate. In addition, on the whole data s....gz | tar zxf - ln -s selfSampleData/pacb...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 s...t incorporate effects from more esoteric sources of noise that may be present in real data ("du...2412 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 p...cerevisiae genome. To make use of these data, we developed a novel open-source hybrid error correction algori...nanopore reads using complementary MiSeq data and produce a de novo assembly tha...2411 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...ntitative approaches for comparing and analyzing genomes starting from raw sequencing data. The...2411 days ago