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Platypus: A Haplotype-Based Variant Caller For Next Generation Sequence Data
By Shruti Paniwala 2923 days agowww.well.ox.ac.uk - Platypus is a tool designed for efficient and accurate variant-detection in high-throughput sequencing data. By using local realignment of reads and local assembly it achieves both high sensitivity and high specificity. Platypus can detect...DAVI: Deep learning-based tool for alignment and single nucleotide variant identification
By Jit 2050 days ago Comments (1)github.com - DAVI consists of models for both global and local alignment and for variant calling. We have evaluated the performance of DAVI against existing state-of-the-art tool sets and found that its accuracy and performance is comparable to existing tools...LoFreq*: A sequence-quality aware, ultra-sensitive variant caller for NGS data
By BioStar 2442 days agocsb5.github.io - LoFreq* (i.e. LoFreq version 2) is a fast and sensitive variant-caller for inferring SNVs and indels from next-generation sequencing data. It makes full use of base-call qualities and other sources of errors inherent in sequencing (e.g. mapping or...Minda: a tool for evaluating structural variant (SV) callers
By LEGE 940 days agogithub.com - Minda is a tool for evaluating structural variant (SV) callers that standardizes VCF records for compatibility with both germline and somatic SV callers, benchmarks against a single VCF input file, or benchmarks against an ensemble call set...
Is reference genome necessary for gene expression study in transcriptome sequencing or for variant discovery in genome sequencing?
Rahul Agarwal 4849 days ago320000 viruses in mammals yet to sequenced in future!!!
By Rahul Agarwal 4801 days ago70 per cent of emerging viral diseases such as HIV/AIDS, West Nile, Ebola, SARS, and influenza, are zoonoses - infections of animals that cross into humans.RNA Bioinformatics and High Throughput Analysis Jena
Research Topics: High Throughput Sequencing Analysis Comparative Genomics Identification and Annotation of Non-coding RNAs Bioinformatic Analysis and System Biology of Viruses Coevolution of Proteins and RNAs Algorithmic...Bio-Rad Acquires GnuBIO
By Rahul Agarwal 4573 days agoGnuBIO-Developer of Droplet-Based DNA Sequencing TechnologyDeadly Human Pathogen Cryptococcus Sequenced
By Rahul Agarwal 4567 days agoCryptococcus neoformans is a fungus responsible for a million cases of pneumonia and meningitis every year- are so malleable and dangerous
