Shruti Paniwala
A Bioinformatician
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PLAST: A fast, accurate and NGS scalable bank-to-bank sequence similarity search tool
By Jit 2548 days agohttps://plast.inria.fr/ - PLAST is a fast, accurate and NGS scalable bank-to-bank sequence similarity search tool providing significant accelerations of seeds-based heuristic comparison methods, such as the Blast suite of algorithms. Relying on unique software architecture,...HapCUT2: robust and accurate haplotype assembly for diverse sequencing technologies
By Jit 2383 days agogithub.com - HapCUT2 is a maximum-likelihood-based tool for assembling haplotypes from DNA sequence reads, designed to "just work" with excellent speed and accuracy. We found that previously described haplotype assembly methods are specialized for specific read...P_RNA_scaffolder: a fast and accurate genome scaffolder using paired-end RNA-sequencing reads
By BioStar 2268 days agowww.fishbrowser.org - P_RNA_scaffolder is a novel scaffolding tool using Pair-end RNA-seq to scaffold genome fragments. The method is suitable for most genomes. The program could utilize Illumina Paired-end RNA-sequencing reads from target speciesies. Our method provides...Artificial intelligence is more accurate than doctors in diagnosing breast cancer
By BioStar 1786 days agoArtificial intelligence is more accurate than doctors in diagnosing breast cancer from mammograms, a study in the journal Nature suggests.Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
By Jit 1429 days agogithub.com - Hifiasm is a fast haplotype-resolved de novo assembler for PacBio Hifi reads. It can assemble a human genome in several hours and works with the California redwood genome, one of the most complex genomes sequenced so far. Hifiasm can produce...OrthoGNC: A Software for Accurate Identification of Orthologs Based on Gene Neighborhood...
By Jit 2565 days agowww.sciencedirect.com - Orthology relations can be used to transfer annotations from one gene (or protein) to another. Hence, detecting orthology relations has become an important task in the post-genomic era. Various genomic events, such as duplication and horizontal gene...Cleaner BLAST Databases for More Accurate Results
By LEGE 213 days agoRemoving contaminated sequences using NCBI quality assurance toolsVCFtools: perform common tasks with VCF files such as file validation, file merging, intersecting,...
By Rahul Nayak 2299 days agovcftools.sourceforge.net - VCFtools contains a Perl API (Vcf.pm) and a number of Perl scripts that can be used to perform common tasks with VCF files such as file validation, file merging, intersecting, complements, etc. The Perl tools support all versions of the VCF...HybPiper
By Jit 2940 days agogithub.com - HybPiper was designed for targeted sequence capture, in which DNA sequencing libraries are enriched for gene regions of interest, especially for phylogenetics. HybPiper is a suite of Python scripts that wrap and connect bioinformatics tools in order...DeepHiC: A Generative Adversarial Network for Enhancing Hi-C Data Resolution
By Rahul Nayak 1725 days agosysomics.com - DeepHiC is a GAN-based model for enhancing Hi-C data resolution. We developed this server for helping researchers to enhance their own low-resolution data by a few steps of clicks. Ab initio training could be performed according to our published...
