Rahul Agarwal
I'm a Bioinformatician and Programmer
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McClintock: Meta-pipeline to identify transposable element insertions using next generation...
By BioStar 2048 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....Figeno: Tool for plotting sequencing data along genomic coordinates.
By LEGE 627 days agogithub.com - Tool for plotting sequencing data along genomic coordinates. FIGENO is a FIGure GENerator for GENOmics With figeno, you can plot various types of sequencing data along genomic coordinates. Video...
Commercial and public next-gen-seq (NGS) software
Last updated 4280 days ago by Partek Comments (7)Integrated solutions CLCbio Genomics Workbench - de novo and reference assembly of Sanger, Roche FLX, Illumina, Helicos, and SOLiD data. Commercial next-gen-seq software that extends the CLCbio Main Workbench software. Includes SNP detection,...kSNP3.0: SNP detection and phylogenetic analysis of genomes without genome alignment or reference...
By Jit 3101 days agosourceforge.net - Sept. 20, 2017 Version 3.1 released. Major upgrade. Version 3.1 fixes the problems with SNP annotation that arose when NCBI discontinued use of GI numbers. Please read carefully the Preface (page 3) and the File of annotated genomes section (pages...RAINBOWR: Reliable Association INference By Optimizing Weights with R (R package for SNP-set GWAS...
By Surabhi Chaudhary 2289 days agogithub.com - RAINBOWR(Reliable Association INference By Optimizing Weights with R) is a package to perform several types of GWAS as follows. Single-SNP GWAS with RGWAS.normal function SNP-set (or gene set) GWAS with RGWAS.multisnp function (which tests...DAVI: Deep learning-based tool for alignment and single nucleotide variant identification
By Jit 1907 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...VG: variation graph data structures, interchange formats, alignment, genotyping, and variant...
By Jit 2320 days agogithub.com - Variation graphs provide a succinct encoding of the sequences of many genomes. A variation graph (in particular as implemented in vg) is composed of: nodes, which are labeled by sequences and ids edges, which connect two nodes via either of...Talkowski Laboratory
The Talkowski laboratory explores the impact of genomic alterations on human neurodevelopment and neuropsychiatric disorders, and the application of innovations in sequencing technology to genetic diagnostics. Mike received undergraduate degrees in...Sequencing Solutions to World Health
By Rahul Agarwal 4663 days agowww.lifetechnologies.com - "New technology that quickly, easily and economically reveals the genomes of viruses and pathogens transforms public health and medicine." Source: Life technologiesTwo major breakthrough!!
By Rahul Agarwal 4659 days agoHigh-value Tannat grape sequenced and $1 syphilis detection test
