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RASTtk : algorithm for building custom annotation pipelines and annotating batches of genomes
By Abhi 3132 days agohttp://rast.nmpdr.org/ - The RAST (Rapid Annotation using Subsystem Technology) annotation engine was built in 2008 to annotate bacterial and archaeal genomes. It works by offering a standard software pipeline for identifying genomic features (i.e., protein-encoding genes...DIYA: a bacterial annotation pipeline for any genomics lab
By Jit 2703 days agosourceforge.net - DIY Genomics is an open source bioinformatics consortium intended to bring a collection of tools and libraries into the hands of small scale genomics labs for the process of sequence assembly and annotation. Projects include DIYA, MGAP, CRISPR, and...FUMA GWAS: Functional Mapping and Annotation of Genome-Wide Association Studies
By Jit 2002 days agohttps://fuma.ctglab.nl/ - FUMA is a platform that can be used to annotate, prioritize, visualize and interpret GWAS results. The SNP2GENE function takes GWAS summary statistics as an input, and provides extensive functional annotation for all SNPs in genomic...Web Apollo: a web-based genomic annotation editing platform
By Jit 2675 days agogenomearchitect.github.io - Web Apollo is the first instantaneous, collaborative genomic annotation editor available on the web. One of the natural consequences following from current advances in sequencing technology is that there are more and more researchers sequencing new...ChopStitch: exon annotation and splice graph construction using transcriptome assembly and whole...
By Rahul Nayak 2335 days agogithub.com - ChopStitch is a new method for finding putative exons and constructing splice graphs using an assembled transcriptome and whole genome shotgun sequencing (WGSS) data. ChopStitch identifies exon-exon boundaries in de novo assembled RNA-seq data with...GenomeView: genome browser and annotation editor
By Rahul Nayak 2152 days agosourceforge.net - GenomeView is a genome browser and annotation editor that displays reference sequence, annotation, multiple alignments, short read alignments and graphs. Most major data formats are supported. Local and internet files can be loaded.This project has...MFannot : a program for the annotation of mitochondrial and plastid genomes
By Jit 1916 days agogithub.com - MFannot is a program for the annotation of mitochondrial and plastid genomes MFannot is a program for the annotation of mitochondrial and plastid genomes. It is a PERL wrapper around a set of diverse, external independent tools. It makes intense...NucDiff: In-depth characterization and annotation of differences between two sets of DNA sequences
By Jit 1663 days agogithub.com - NucDiff locates and categorizes differences between two closely related nucleotide sequences. It is able to deal with very fragmented genomes, structural rearrangements and various local differences. These features make NucDiff to be perfectly...JCVI utility libraries
By Jit 1294 days agogithub.com - Collection of Python libraries to parse bioinformatics files, or perform computation related to assembly, annotation, and comparative genomics.dbCAN: a web server and DataBase for automated Carbohydrate-active enzyme ANnotation
By Jit 2735 days agocsbl.bmb.uga.edu - dbCAN is a web server and DataBase for automated Carbohydrate-active enzyme ANnotation, funded by the BioEnergy Science Center of the DOE. Similar resources on the web include CAZy database and CAT. All...
