Results for "read depth"
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Cutadapt finds and removes adapter sequences, primers, poly-A tails and other...uence from your high-throughput sequencing reads. Cleaning your data in this way is often required: Reads from small-RNA sequencing co...en you don’t want them to be in your reads...2909 days ago
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 bui...e of the paired end library is. Quick links: Installation,Operation, Read...2902 days ago
MOSAIK: A Hash-Based Algorithm for Accurate Next-Generation Sequencing Short-Read Mapping
MOSAIK is a stable, sensitive and open-source program for mapping second and third-generation sequencing reads to a reference genome. Uniquely among current mapping tools, MOSAIK can align reads...2902 days ago
- Tools for making blobplots or Taxon-Annotated-GC-Coverage plots (TAGC plots) to visualise the contents of genome a...e paper to create a preliminary assembly, and to create and collate GC content, read...
2878 days ago
- The Genome Assembly Evaluation Metrics and Reporting (GAEMR) package is an assembly analy...specific charts and tables. GAEMR standardizes input by converting a variety of read...
2877 days ago
CovCal: Coverage / Read Count Calculator
Coverage / Read Count Calculator Calculate how much sequencing you need to hit a target depth of coverage (or vice versa). Instructions: set the read length/configuration and geno...ld. Coverage is calculated as C=LN/G and reads as N=CG/L where C = Coverage...2161 days ago
- Reads simulator Wgsim is a small tool for simulating sequence reads from a reference genome. It is able to simula...n/deletion (INDEL) polymorphisms, and simulate reads with uniform substitution se...e simulated polymorphisms, and writes the true read...
2868 days ago
- Decoding SAM flags This utility makes it easy to identify what are the properties of a read based on its SAM flag value, or conversely, to find what the SAM Flag value would be for a given combin...
2862 days ago
- Kaiju is a program for the taxonomic classification of metagenomic high-throughput sequencing reads. Each read is directly assigned to a tax...robial eukaryotes. Kaiju translates reads into amino acid sequences, w...search can process up to millions of reads...
2864 days ago
- Scarpa is a stand-alone scaffolding tool for NGS data. It can be used together with virtually any genome assembler and any NGS read...
2848 days ago
