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Bonnie Berger, NAS
CSAIL article

MIT professor Bonnie Berger was elected to the National Academy of Sciences (AAAS) for her “distinguished and continuing achievements in original research.” She joins a new class of 146 members, including 26 internationally.

Category
Computational Biology
Language
Python

We present Carnelian, a pipeline for alignment-free functional binning and abundance estimation, that leverages low-density even-coverage locality sensititve hashing to represent metagenomic reads in a low-dimensional manifold. When coupled with one-against-all classifiers, our tool bins whole metagenomic sequencing reads by molecular function encoded in their gene content at significantly higher accuracy than existing methods, especially for novel proteins.

MIT License
Last Updated
Category
Computational Biology
Language
Python

Metagenomic binning using low-density hashing a support vector machine

GNU GPL License
Last Updated
Category
Computational Biology
Language
Python

MICA (Metagenomic Inquiry Compressive Acceleration) is a family of programs for performing compressively-accelerated metagenomic sequence searches based on BLASTX and DIAMOND. MICA also includes compressively accelerated versions of the BLASTP family of tools (including PSI-BLAST and DELTA-BLAST), as well as a compression tool (mica-compress) for creating searchable, compressed databases based on an input FASTA file.

GNU GPL License
Last Updated
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biggest tech breakthroughs
CSAIL article

Given that our smartphones have largely become appendages over the last decade, it’s hard to imagine that ten years ago there was no Instagram, Uber, TikTok or Tinder. The ways we move, shop, eat and communicate continue to evolve thanks to the technologies we use. It can be easy to forget how quickly things have changed - so let’s turn back the clocks and reminisce about some of the computing breakthroughs that have transformed our lives in the ’10s.