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Sébastien Boisvert
167 followers -
Software craftsman and Aligner operator
Software craftsman and Aligner operator

167 followers
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Sébastien's posts

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A list of interesting papers on optical mapping
At GYDLE inc., I work on optical mapping problems, and sometimes I find solutions to these problems. To tackle efficiently any problem, the error model for the problem must be understood. To write software that deals well with a given type of data, this typ...

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The Bioinformatics Adventure continues.
According to  the social network LinkedIn, I have been working on optical mapping problems at Gydle Inc. (with Philippe and Marc-Alexandre) for 8 months so far. I previously worked at Argonne National Laboratory (with Fangfang and Rick and other people). Th...

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The Spark Notebook from creator Kate Matsudaira
I received my Spark Notebook. What is the Spark Notebook, you may ask. The Spark Notebook combines form and function. The Spark Notebook project raised funding on Kickstarter too. The way I see it, the Spark Notebook is an agenda (a 6-month agenda) with add...

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The convergence of HPC and cloud computing
An exascale computer is an imaginary system that can sustain one exaflops (10^18 floating point operations per second.) Such an object is needed in science and engineering, mostly for simulating virtual versions of objects found in the real world, such as p...

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A look back at 2014 and plan for 2015
2014 was a year of changes. I completed my doctoral thesis, not without difficulty in its redaction (I am not a very good writer), and I also relocated with my girlfriend to Illinois. And I started to work at Argonne. I think I got lucky -- I ended up getti...

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Profiling the Thorium actor model engine with LTTng UST
I have been working with perf for a while now, butfound it only useful mostly for hardware counters. I typically use this command to record events ($thread is the Linux LWP (lightweight process) thread number): perf record -g \     -e cache-references,cache...

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Profiling an high-performance actor application for metagenomics
I am currently in an improvement phase where I break, build and improve various components of the system. The usual way of doing things is to have a static view of one node among all the nodes
inside an actor computation. The graphs look like this: 512x16 1...

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The public datasets from the DOE/JGI Great Prairie Soil Metagenome Grand Challenge
I am working on a couple of very large public metagenomics datasets from the Department of Energy (DOE) Joint Genome Institute (JGI). These datasets were produced in the context of the Grand Challenge program. Professor Janet Jansson was the Principal Inves...
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