Shruti Paniwala
A Bioinformatician
Our Sponsors
Related items
The Atlas of Nine Billion Possibilities
By Jitendra Narayan 31 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 15 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,...FMLRC: a long-read error correction tool using the multi-string Burrows Wheeler Transform
By Neel 2982 days agogithub.com - FMLRC, or FM-index Long Read Corrector, is a tool for performing hybrid correction of long read sequencing using the BWT and FM-index of short-read sequencing data. Given a BWT of the short-read sequencing data, FMLRC will build an FM-index and use...Desai Lab
Evolutionary Dynamics and Population Genetics Natural selection and other evolutionary forces lead to particular patterns of evolutionary dynamics, and they leave characteristic signatures on the genetic variation within populations. We use a...Understanding reads mapping and flags !
By Jit 2724 days agoLinear, Chimeric, Supplementary, Primary and Secondary AlignmentsMany-to-many pairwise alignments of two sequence sets
By Poonam Mahapatra 3034 days agoemboss.sourceforge.net - needleall reads a set of input sequences and compares them all to one or more sequences, writing their optimal global sequence alignments to file. It uses the Needleman-Wunsch alignment algorithm to find the optimum alignment (including gaps) of two...BLAST options, setting and defaults
By Jit 2860 days agowww.arabidopsis.org - BLAST stands for Basic Local Alignment Search Tool and was developed by Altschul et al. (1990) and significantly improved by Altschul et al. (1997). It is a very fast search algorithm that is used to separately search protein or DNA...Termal: a fast and interactive terminal-based viewer for multiple sequence alignments
By LEGE 382 days agogithub.com - termal, a fast, interactive, terminal-based viewer for multiple sequence alignments (MSAs), designed for use on remote systems such as high-performance computing (HPC)...SuRankCo: supervised ranking of contigs in de novo assemblies
By Neel 3425 days agosourceforge.net - SuRankCo is a machine learning based software to score and rank contigs from de novo assemblies of next generation sequencing data. It trains with alignments of contigs with known reference genomes and predicts scores and ranking for contigs which...Rebaler: program for conducting reference-based assemblies using long reads.
By Jit 2943 days agogithub.com - Rebaler is a program for conducting reference-based assemblies using long reads. It relies mainly on minimap2 for alignment and Racon for making consensus sequences. I made Rebaler for bacterial genomes (specifically for the...
