Results for "structural and sequence variation"
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Understanding Following table and graphs Duplication level kmer profile per base GC content per base N content per base quality per base sequence content per sequence...2936 days ago
HOMER: Software for motif discovery and next-gen sequencing analysis
This tutorial covers topics independently of HOMER, and represents knowledge which is...puting environment Retrieving and storing sequencing files ...from public sources) Checking sequence quality, trimming, general sequence manipulation Mapping reads t...De novo transcript discovery and diffe...2925 days ago
mrFAST: Micro Read Fast Alignment Search Tool
mrFAST is a read mapper that is designed to map short reads to reference genome with a special emphasis on the discovery of structural variation and segm...manual, describes how to choose the parameters and tune mrFAST with respect to the lib...2925 days ago
CANU: Assembling Large Genomes with Single-Molecule Sequencing and Locality Sensitive Hashing.
Canu is a fork of the Celera Assembler designed for high-noise sing...is currently alpha level, feel free to use and report issues encountered. Canu i...our steps: Detect overlaps in high-noise sequences using MHAP Generate corrected sequence...2908 days ago
MEDEA: Comparative Genomic Visualization with Adobe Flash
As the number of sequence and annotated genomes grows larger, the need to understand, compare, and contrast the data becomes increasingly important. Using the power of the human visual system to detect trends and spot...2925 days ago
YASS :: genomic similarity search tool
YASS is a genomic similarity search tool, for nucleic (DNA/RNA) sequences in fasta or plain text...potential similarity regions, and then tries to extend them to local...e, possibly overlapping seeds and a new hit criterion to ensure a go...ue evaluated according to the sequence...2919 days ago
- Cutadapt finds and removes adapter sequences, primers, poly-A tails and other types of unwanted sequence from your high-throughput seq...finding the adapter or primer sequences in an error-tolerant way. It can also modify and filter reads in various ways. Adap...cters. Also, paired-end reads and even...
2908 days ago
- Platanus is a novel de novo sequence assembler that can reconstruct genomic sequences of highly heterozygous diploids from massively parallel shotgun sequencing data. The latest version is 1....
2908 days ago
SATSUMA : Highly sensitive whole-genome synteny alignments.
Satsuma is a whole-genome synteny alignment program. It takes t...non-coding genes, or neutral sequences. Satsuma does not requi...has parallelization built-in and is designed to run on multi-core a...incomplete list of questions and answers (yes, these have really be...2908 days ago
Hagfish - assess an assembly through creative use of coverage plots
...sh builds on the concept of coverage plots and aims to assist (amongst others) in q... genome assembly or identification of structural variation in a genome re-sequenci...experiment. Hagfish requires a reference sequence and a paired end re-sequencin...2900 days ago
