Jit
Enthusiast computational biologist with business dream !!!
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GPOPSIM: a simulation tool for whole-genome genetic data
By Jit 3062 days agogithub.com - GPOPSIM is a simulation tool for pedigree, phenotypes, and genomic data, with a variety of population and genome structures and trait genetic architectures. It provides flexible parameter settings for a wide discipline of users, especially can...NanoPack: visualizing and processing long-read sequencing data
By Jit 2857 days agogithub.com - The NanoPack tools are written in Python3 and released under the GNU GPL3.0 License. The source code can be found at https://github.com/wdecoster/nanopack, together with links to separate scripts and their documentation. The scripts are...McClintock: Meta-pipeline to identify transposable element insertions using next generation...
By BioStar 2049 days agogithub.com - an integrated bioinformatics pipeline for the detection of TE insertions in whole-genome shotgun data, called McClintock (https://github.com/bergmanlab/mcclintock), which automatically runs and standardizes output for multiple TE detection methods....Creating Genetic Maps from GBS data
By BioStar 1002 days agobioinformaticsworkbook.org - Genetic map, as the name suggest is simply knowing the relative positions of specific sequences across the genome. There are various methods to generate them, but most popular method is to use a cross between the known parents and examining their...DeepHiC: A Generative Adversarial Network for Enhancing Hi-C Data Resolution
By Rahul Nayak 2287 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...
Is reference genome necessary for gene expression study in transcriptome sequencing or for variant discovery in genome sequencing?
Rahul Agarwal 4707 days agoGraph Genome Suite
By Jit 3508 days agowww.sbgenomics.com - Seven Bridges is the biomedical data analysis company accelerating breakthroughs in genomics research for cancer, drug development and precision medicine. We build self-improving systems to analyze millions of genomes, including the Graph...Genome in a Bottle (GIAB) Consortium
By Jit 2324 days ago Comments (3)jimb.stanford.edu - The Genome in a Bottle (GIAB) Consortium is a public-private-academic consortium hosted by NIST to develop the technical infrastructure (reference standards, reference methods, and reference data) to enable translation of whole human genome...Large Language Models in Bioinformatics: Transforming Data Analysis and Interpretation
By LEGE 520 days agoThe integration of artificial intelligence (AI) into bioinformatics has ushered in a new era of computational biology. Among the most transformative advancements are large language models (LLMs), such as GPT and BERT, which leverage deep learning to...PGAP-X: Extension on pan-genome analysis pipeline
By Rahul Nayak 3056 days agohttps://pgapx.ybzhao.com/ - PGAP-X is a microbial comparative genomic analysis platform with graphic interface. Serials of algorithms and methodologies have been developed and integrated to analyze and visualize genomics structure variation, gene distribution with different...
