Research and Testing Laboratory
4321 Marsha Sharp FWY, Door #2
Lubbock, Texas 79407
At Research and Testing, we know that generating sequence data is only half the battle. With sequencing technologies now producing millions of high quality reads per run, working with sequence data has become a significant obstacle for many researchers. At Research and Testing, we have a staff of dedicated bioinformaticians with extensive experience in overcoming these and a variety of other challenges that face researchers every day. We offer the following services:
• Denoising and chimera detection of next generation sequencing data.
• Classification of specific marker-based microbial diversity assays (e.g. 16S, 18S, ITS, SSU, etc…)
• Classification of shotgun library-based metagenomic diversity analysis to the strain level.
• Bacterial genome assembly and annotation.
• Custom sequence database creation and curation.
• Custom pipeline and software creation.
Once you have pulled up the page you will notice on the top left there is a list of samples. Below that are some formatting options.
Max Depth allows you to determine which taxonomic level is the outermost later by selecting how many total layers are shown on the graph.
The collapse button below chart size will allow you to reduce or expand monotypic taxa to first level that shows more than one member.
Within the graph itself, double clicking on a taxon in an interior level will cause that taxon to become the center of the graph, and all of its daughter taxa to circle around it. When you do this, mini-graphs will appear in the top right representing the levels that have been minimized. You can return the graph to the original size simply by clicking on the “All” graph.
For an in-depth description of our pipeline methodology, click here.
Our microbial diversity services include taxonomic analysis using our custom data analysis pipeline. The data analysis pipeline consists of two major stages, the denoising and chimera detection stage and the microbial diversity analysis stage. A brief overview and visualization of our current pipeline can be found below:
• Denoising and Chimera Checking
1. Quality Trimming
3. Chimera Checking
• Microbial Diversity Analysis
1. Quality Checking
2. FASTA Formatted Sequence/Quality File Generation
3. Sequence Clustering
4. Taxonomic Identification
5. Data Analysis
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