Asset Tag: SMRT Analysis
Brochure — SMRT Link: Explore and analyze your data with confidence
With SMRT Link you can unlock the power of PacBio Single Molecule, Real-Time (SMRT) Sequencing using our portfolio of software tools designed to set up and monitor sequencing runs, review performance metrics, analyze, visualize, and annotate your sequencing data.
PBHoney: Detecting SVs with long-read sequencing
2015 SMRT Informatics Developers Conference Presentation Slides: Adam English, from the Human Genome Sequencing Center at Baylor College of Medicine presents on the structural variation tools being developed at Baylor.
The “Art” of shotgun sequencing
2015 SMRT Informatics Developers Conference Presentation Slides: Jason Chin of PacBio highlighted some of the challenges for shotgun assembly while suggesting some potential solutions to obtain diploid assemblies, including the FALCON method.
Structural variation with Pacific Biosciences long reads
2015 SMRT Informatics Developers Conference Presentation Slides: Ali Bashir of Mount Sinai School of Medicine discussed methods for characterizing structural variation in human genomes across a variety of coverage levels.
MinHash for overlapping and assembly
2015 SMRT Informatics Developers Conference Presentation Slides: Sergey Koren of National Biodefense Analysis and Countermeasures Center (NBACC) provided an overview of the MHAP algorithm, a method for assembling large genomes with Sing-Molecule Sequencing and locality sensitive hashing. Using MHAP, Koren produced a human assembly (CHM1) with a contig N50 of >23 Mb.
The Iso-Seq Method: Transcriptome sequencing using long reads
PacBio bioinformatician, Elizabeth Tseng, reviews the bioinformatics strategies utilizing PacBio long-read sequencing data for isoform sequencing for full-length transcript sequencing without assembly.
Making the most of long reads: towards efficient assemblers for reference quality, de novo reconstructions
2015 SMRT Informatics Developers Conference Presentation Slides: Gene Myers, Ph.D., Founding Director, Systems Biology Center, Max Planck Institute delivered the keynote presentation. He talked about building efficient assemblers, the importance of random error distribution in sequencing data, and resolving tricky repeats with very long reads. He also encouraged developers to release assembly modules openly, and noted that data should be straightforward to parse since sharing data interfaces is easier than sharing software interfaces.
CONVEX: de novo transcriptome error correction by convexification
2015 SMRT Informatics Developers Conference Presentation Slides: David Tse of Stanford University presented on a method his team is developing for de novo transcriptome error correction by convexification.
Transcriptome analysis using Hybrid-Seq
2015 SMRT Informatics Developers Conference Presentation Slides: Kin Fau Au of the University of Iowa presented on a suite of transcriptome analysis tools for junction detection, error correction, isoform detection and prediction, and gene fusion.
Understanding methylome, metagenome, structural variants using SMRT Sequencing
2015 SMRT Informatics Developers Conference Presentation Slides: Shinichi Morishita of the University of Tokyo presented on how his team has been using SMRT Sequencing to better understand methylomes, metagenomes and structural variation of various eukaryotic genomes.
Introduction to SMRT informatics developers conference
2015 SMRT Informatics Developers Conference Presentation Slides: Kevin Corcoran of PacBio provided a brief review of community involvement in the development of analysis tools and showed a preview of upcoming sample preparation, chemistry and informatics improvements.