Jit
Enthusiast computational biologist with business dream !!!
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KOALA: KEGG's internal annotation tool for K number assignment of KEGG GENES using SSEARCH...
By Abhimanyu Singh 2732 days agowww.kegg.jp - KOALA (KEGG Orthology And Links Annotation) is KEGG's internal annotation tool for K number assignment of KEGG GENES using SSEARCH computation. BlastKOALA and GhostKOALA assign K numbers to the user's sequence data...Apollo: First instantaneous, collaborative genomic annotation editor available on the Web
By Jit 2562 days agogenomearchitect.github.io - Apollo is a plug-in for the JBrowse Genome Viewer. In addition to genes and pseudogenes, users can annotate ncRNAs (snRNA, snoRNA, tRNA, rRNA), miRNAs, repeat regions, and transposable elements; each annotation type has its own...JCVI:Python utility libraries on genome assembly, annotation and comparative genomics
By Jit 2271 days agogithub.com - Collection of Python libraries to parse bioinformatics files, or perform computation related to assembly, annotation, and comparative genomics. https://github.com/tanghaibao/jcvi More at https://github.com/tanghaibao/jcvi/wikiMetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic...
By Jit 1969 days agogithub.com - MetaEuk is a modular toolkit designed for large-scale gene discovery and annotation in eukaryotic metagenomic contigs. Metaeuk combines the fast and sensitive homology search capabilities of MMseqs2 with a dynamic programming procedure to...CrowdGO: Machine learning and semantic similarity guided consensus Gene Ontology annotation
By Shruti Paniwala 1472 days agogitlab.com - CrowdGO is a protein Gene Ontology predictor using a meta approach, analyzing the predictions of other tools in order to get an improved precision and recall. Please note that the CrowdGO snakemake workflow is currently only tested on Ubuntu. It...IPython: Interactive notebooks
By Rahul Nayak 4228 days agoThe IPython Notebook is a web-based interactive computational environment where you can combine code execution, text, mathematics, plots and rich media into a single documentiTOL: Interactive Tree Of Life
By Rahul Nayak 3244 days agohttps://itol.embl.de/ - Interactive Tree Of Life is an online tool for the display, annotation and management of phylogenetic trees. Explore your trees directly in the browser, and annotate them with various types of data. iTOL can easily visualize trees with 50'000...Interactive Bioinformatics Resources !
By Jit 1759 days agohttp://sandbox.bio - Learn how to use bioinformatics tools right from your browser.Everything runs in a sandbox, so you can experiment all you want. More at sandbox.bioS-plot2: creates an interactive, two-dimensional heatmap of sequences
By Jit 2807 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...dotPlotly: Generate an interactive dot plot from mummer or minimap alignments
By Rahul Nayak 2661 days agogithub.com - Create an interactive dot plot from mummer output OR PAF format R script that makes a plotly interactive and/or static (png/pdf) dot plot. Shiny app available for testing
