Surabhi Chaudhary
A Bioinformatician
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Genome Assembly Workshop 2020
By Jit 1187 days agoucdavis-bioinformatics-training.github.io - Our team offers custom bioinformatics services to academic and private organizations. We have a strong academic background with a focus on cutting edge, open source software. We replicate standard analysis pipelines (best practices) when...Vicoso group
The Vicoso group investigates how sex chromosomes evolve over time, and what biological forces are driving their patterns of differentiation. The Vicoso group is interested in understanding several aspects of the biology of sex chromosomes, and...UCSC SARS-CoV-2 Genome Browser
By Jit 1052 days agowww.nature.com - The UCSC SARS-CoV-2 Genome Browser (https://genome.ucsc.edu/covid19.html) is an adaptation of our popular genome-browser visualization tool for this virus, containing many annotation tracks and new features, including conservation with similar...MUM&Co is a simple bash script that uses Whole Genome Alignment information provided by MUMmer...
By Rahul Nayak 942 days agogithub.com - MUM&Co is able to detect:Deletions, insertions, tandem duplications and tandem contractions (>=50bp & <=150kb)Inversions (>=1kb) and translocations (>=10kb)The ATCC Genome Portal
By Abhi 192 days agohttps://genomes.atcc.org/ - The ATCC Genome Portal (AGP, https://genomes.atcc.org/) is a database of authenticated genomes for bacteria, fungi, protists, and viruses held in ATCC’s biorepository. It now includes 3,938 assemblies (253% increase) produced under ISO...Proksee
By LEGE 241 days agohttps://proksee.ca/ - Proksee is an expert system for genome assembly, annotation and visualization. To begin using Proksee, provide a complete genome sequence, sequencing reads or a CGView/Proksee map JSON file. Please Cite the Following Grant JR, Enns E, Marinier E,...UnCoVar: Workflow for Transparent and Robust Virus Variant Calling, Genome Reconstruction and...
By BioStar 110 days agoikim-essen.github.io - UnCoVar: Workflow for Transparent and Robust Virus Variant Calling, Genome Reconstruction and Lineage Assignment Using state of the art tools, easily extended for other viruses Tool and database updates for critical components via...S-plot2: Rapid Visual and Statistical Analysis of Genomic Sequences
By Abhimanyu Singh 2244 days agobitbucket.org - S-plot2 creates an interactive, two-dimensional heatmap capturing the similarities and dissimilarities in nucleotide usage between genomic sequences (partial or complete). In S-plot2, whole eukaryotic chromosomes and smaller prokaryotic genomes can...ULTRA (ULTRA Locates Tandemly Repetitive Areas) : Effective Labeling of Repetitive Genomic Sequence
By Abhi 168 days agogithub.com - ULTRA is a tool to find and annotate tandem repeats inside genomic sequence. It is able to find repeats of any length and of any period (up to a maximum period of 4000). It can find highly decayed repeats missed by other software, and it will also...SVfinder: Tool for detecting genomic rearrangement form DNA-seq data
By Robert M Willioms 2536 days agogithub.com - SVfinder provides genome-wide detection of structural variants from next generation paired-end sequencing reads.
