Results for "reads"
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How MIRA follows for the ref based assembly?
MIRA follows for the ref based assembly (like mapping the reads on the reference with xxx, etc.) and if its possible to have a figure with the workflow.Tags: Mira, Assembly, Flow, Workflow, Reads
2910 days ago
- Metagenomics sequencing projects collect samples of DNA from uncharacterized environments that may contain hundreds or even thousands of species. One of the main challenges in analyzing a metagenome is phylogenetic classification of raw sequence reads into groups representing the same or similar ...
Tags: Bioinformatics, Analysis, NGS, PHYMMBL, Genome, MetaGenome, Classification, Reads
2816 days ago
- ART is a set of simulation tools to generate synthetic next-generation sequencing reads. ART simulates sequencing reads by mimicking real sequencing process with empirical error models or quality profiles summarized from large recalibrated sequencing data. ART can also simulate reads using user o...
Tags: Bioinformatics, Stats, Reads, NGS, Simulator
2792 days ago
Maq: Mapping and Assembly with Quality
Maq stands for Mapping and Assembly with Quality It builds assembly by mapping short reads to reference sequences. Maq is a project hosted by SourceForge.net. The project page is available athttp://sourceforge.net/projects/maq/. Maq is previously known as mapass2. Run Maq Now...Tags: Bioinformatics, Maq, Variation, Mapping, Quality, Reads, SV, NGS, Genome
2773 days ago
Why BreakDancer does not displays the amount of reads supporting SV?
Using breakdancer the output consists of DEL, INV, INS, CTX and ITX. Using following commands: bam2cfg.pl -g -h dis.bam normal.bam > config_file.cfgbreakdancer_max -d test config_file.cfg > dis_normal.ctx the 11th output column should displays the amount of reads supporting the called SV ...Tags: Bioinformatics, SV, BreakDancer, Reads, Depth
2755 days ago
BIMA V3: an aligner customized for mate pair library sequencing
Summary: Mate pair library sequencing is an effective and economical method for detecting genomic structural variants and chromosomal abnormalities. Unfortunately, the mapping and alignment of mate pair read pairs to a reference genome is a challenging and time consuming process for most NGS alig...Tags: Bioinformatics, Analysis, Genome, Mapping, NGS, BIMA, Reads
2751 days ago
- YAHA, a fast and flexible hash-based aligner. YAHA is as fast and accurate as BWA-SW at finding the single best alignment per query and is dramatically faster and more sensitive than both SSAHA2 and MegaBLAST at finding all possible alignments. Unlike other aligners that report all, or one, align...
Tags: Bioinformatics, Alignment, NGS, Reads, YAHA
2714 days ago
- A flexible framework for rapid genome analysis and interpretation C Chiang, R M Layer, G G Faust, M R Lindberg, D B Rose, E P Garrison, G T Marth, A R Quinlan, and I M Hall. SpeedSeq: ultra-fast personal genome analysis and interpretation. Nat Meth (2015). doi:10.1038/nmeth.3505. http://www.nat...
Tags: Bioinformatics, Alignment, NGS, Reads, SpeedSeq
2714 days ago
- This tutorial includes resources for learning more about PacBio data and bioinformatics analysis, and includes content suitable for both beginners and experts. Below are links to training modules (webinars and PowerPoint presentations) to help you get started with your data processing, as well as...
Tags: Bioinformatics, Analysis, Assembly, Genome, PacBio, LongReads, Reads
2679 days ago
