Hagfish - assess an assembly through creative use of coverage plots
Hagfish is a tool that is to be used in data analysis of Next Generation Sequencing (NGS) experiments. Hagfish builds on the concept of coverage plots and aims to assist (amongst others) in quality control of de novo genome assembly or identification of structural variation in a genome ...Tags: Bioinformatics, Hagfish, Assess, Assembly, Coverage, Plots, NGS, Structure, Variation, SV, Assembly, Genome
2895 days ago
Tags: Bioinformatics, NGS, Stampy, Reads, Mapping, Map
2895 days ago
karyoploteR: plot whole genomes with arbitrary data
karyoploteR is an R package to create karyoplots, that is, representations of whole genomes with arbitrary data plotted on them. It is inspired by the R base graphics system and does not depend on other graphics packages. The aim of karyoploteR is to offer the user an easy way to plot data a...Tags: karyoploteR, plot, whole, genomes, NGS, arbitrary, data, karyotype
1939 days ago
Tags: Bioinformatics, Analysis, NGS, KISSPLICE, Transcriptome, Assembler, Genome
2807 days ago
Tags: Bioinformatics, methylKit, Methylation, DNA, Analysis, Genome, NGS, Sequence
2881 days ago
Tags: Bioinformatics, Blobology, Blobplot, TAGC Plot, GC, Assembly, NGS, QC
2871 days ago
Tags: Bioinformatics, GAEMR, Assembly, Stats, Correctness, Accuracy, Software, Tool, NGS
2870 days ago
CNIDARIA: fast, reference-free phylogenomic clustering
Motivation: Identification of biological specimens is a major requirement for a range of applications. Reference-free methods analyse unprocessed sequencing data without relying on prior knowledge, but these do not scale to arbitrarily large genomes and arbitrarily large phylogenetic distances. ...Tags: Bioinformatics, CNIDARIA, Fast, Reference-free, Phylogenomic, Clustering, NGS
2868 days ago
Tags: Bioinformatics, Analysis, Visualization, Platform, Omics, NGS, Anvio
2868 days ago
Linux command line exercises for NGS data processing
The purpose of this tutorial is to introduce students to the frequently used tools for NGS analysis as well as giving experience in writing one-liners. Copy the required files to your current directory, change directory (cd) to the linuxTutorial folder, and do all the processing inside: [uzi@qui...Tags: Bioinformatics, Tutorial, Genome, NGS, Pipelines
2862 days ago