Date: Mar 10, 2014. Aureliano Bombarely: Insights into Plant Genome Sequence Assembly

Aureliano Bombarely is a Research Associate at the Doyle Lab in the Plant Biology Department. He was formerly with the Sol Genomics group at BTI. Please see here for recent publications.

Recent developments in genome assembly tools and algorithms will be presented. There will be particular focus on challenges associated with assembling polyploid plant genomes. Methods to assess quality and completeness in order to compare multiple assemblies will also be covered

Date: Mar 10, 2014
Time: 4:00 PM
Location: Weill hall, Room 321

Slides

Date: Feb 24, 2014. Jaroslaw Pillardy: Solutions for large data storage computing infrastructure

Jarek is the Director of the BRC Bioinformatics Facility on campus.

Large data storage infrastructure problems and solutions based on Bioinformatics Facility experience will be discussed with a focus on hardware issues. What do we use and why do we use it? How to achieve compromise between cost, performance and maintenance?

Date: Feb 24, 2014
Time: 11:00 AM
Location: Weill hall, Room 221

Slides

Date: Nov 22, 2013. Lukas Mueller: Git

The first talk will be on Git by Lukas Mueller from Sol Genomics Network. Its highly recommended that you bring your laptop with Git installed for hands-on exercises. You can download Git here.

Date: Nov 22, 2013
Time: 2:00 PM
Location: Weill hall, Room 321

Slides

Some useful links
Git for Scientists
Git branching model

The BTI Perl Club is being revived as the Bioinformatics Practitioners Club

This will be a forum for practicing bioinformaticians at the Ithaca campus to discuss technology. There are many introductory courses as well as domain-specific journal clubs already available. See here for a list. The focus of Bioinformatics Practitioners Club will be developments in methods, practices and new tools for bioinformatics. The meetings will typically be held once a month. The time and location details for the next talk will be sent out soon on the mailing list.

Date: Oct 30, 2012. Jeremy Edwards. Topic: Pedigrees, GraphViz, SVG

GraphViz: from ATT

SVG

Pedigrees in SGN

Slides

Date: Oct 16, 2012. Presenter: Qi Sun. Topic: Ensembl & Multithreading

Qi Sun

• Overview of Ensembl system.
• Implementing multi-processing in Perl (with example code)

Presentation

Date: April 10: Dave Matthews. FastBit & T3 Phenotypes

Today, Dave Matthews gave an overview of FastBit (which is part of FastQuery for HDF5).

Slides

Dave also demonstrated some of the capabilities of the T3 phenotypic database.