factR: Functional Annotation of Custom-assembled Transcripts in R
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Updated
Aug 2, 2023 - R
factR: Functional Annotation of Custom-assembled Transcripts in R
TAIFA is a workflow for conducting Whole-Genome Sequencing (WGS) of bacteria
Nextcast: a software suite to analyse and model toxicogenomics data
Material used for a bioinformatics computer lab course, covering DNA/RNA sequence assembly and analysis, phylogenetic analysis, gene functional annotation, and metagenomic analysis
A multi-way annotator for genetic elements and genetic variations
Snakemake pipeline to benchmark 11 functional pathway annotation systems
Material used for a course on transcriptomics, covering transcriptome assembly, transcriptome functional annotation, differential expression analysis, and functional annotation data mining
A computational tools for improving the functional annotation of bacterial genomes and the classification of CDSs into cllusters of orthologous groups (COGs). It allows summarizing annotations from different resources to provide a more accurate annotation of genes regarding their assignment into COGs and their categories.
An R package for performing MultiSTAAR procedure in whole-genome sequencing studies
A back-end functional annotation database for the hg19 reference genome inspired by the FAVOR project.
An app for automatically functionally annotating the variants of whole-genome/whole-exome sequencing (WGS/WES) studies and integrating the functional annotations with the genotype data using FAVORannotator in UK Biobank RAP
A pipeline for taxonomic classification and functional annotation of metagenomic reads. Based on MEDUSA
Package for improving the functional annotation of bacterial genomes, classification of protein-coding sequences into clusters of orthologous groups, and visualization of the final annotated genome.
GitHub repository for the NodeJS/Express REST web service go-api-sparql. Used for the front-end www.geneontology.org/gocam.
Knowles Lab Research: determine which genetic variants cause a phenotype with non-binary functional annotations
Analysis workflow to generate fungal assemblies, generate gene structural and functional annotations
Software for monitoring metagenomes using nanopore sequencing reads
Adjustment of MAKER's functional annotation scripts
Python3 extension for DAVID Bioinformatics Tool
Using un-assembled genome sequence data from the Centers for Disease Control and Prevention (CDC) proceed through five distinct stages of analysis and interpretation of that data: 1-genome assembly, 2-gene prediction, 3-functional annotation, 4-comparative genomics and 5-production of a predictive webserver.
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