Rahul Nayak
A Bioinformatician
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PG2: Making Pangenome Graphs Easier to Understand
By Jitendra Narayan 48 days agoGenomics is moving beyond the traditional approach of studying DNA using a single reference genome. Today, researchers are increasingly using pangenomes, which represent genetic information from multiple genomes and capture a much broader range of...The Atlas of Nine Billion Possibilities
By Jitendra Narayan 26 days agoThis question led to the AlphaGenome Atlas (https://deepmind.google.com/science/alphagenome/atlas?), a detailed map of nearly every possible single-letter change in the human genome. Instead of checking each change one by one, researchers can use...Finding the Hidden Switches: The Story of KiNext and Protein Kinases
By LEGE 11 days agoEvery newly sequenced genome contains thousands of proteins, but identifying what each protein does is a much harder task. Among these proteins are protein kinases, important molecular regulators that control processes such as cell growth,...TwinBLAST: When Two Is Better than One
By Jit 2585 days agogithub.com - TwinBLAST is a web-based tool for viewing 2 BLAST reports simultaneouslyside-by-side. It uses ExtJS (www.sencha.com/products/extjs/) to provide 2independently scrollable panels. BioPerl (www.bioperl.org) is used to indexraw BLAST reports and...COSMOS, our workflow management system for NGS data
By Jit 4457 days agocosmos.hms.harvard.edu - COSMOS, our Python-based management system for implementing large-scale parallel workflows focusing on, but not restricted to, large-scale short-read "NGS" sequencing data is open-access published via Advance Access in Bioinformatics (Gafni et al....Bioinformatics Scripts
By Jit 4273 days agomilkweedgenome.org - Some of the useful bioinformatics scripts. For example ... contig-stats.pl is a Perl script that will automatically describe features of a sequence assembly. http://milkweedgenome.org/?q=scriptsbipype
By Jit 3595 days agoreadthedocs.org - Bipype is a very useful program, which prepare a lot of types of bioinformatics analyses. There are three input options: amplicons, WGS (whole genome sequences) and metatranscriptomic data. If amplicons are input data, then bipype does...
Installing python-numpy !
Last updated 3073 days ago by Jit$ sudo apt-get install python-numpy python-scipy python-matplotlib ipython ipython-notebook python-pandas python-sympy python-nose[sudo] password for urbe: Reading package lists... DoneBuilding dependency tree Reading state information... DoneThe...Setting python version as default on Linux
By Rahul Nayak 2953 days agoIf you have a later version than 2.6 you'll need to set 2.6 as the default Python.
