OntologiesHome of the Genomic Feature and Variation Ontology (GFVO)
Stars: ✭ 16 (-42.86%)
JbrowseA modern genome browser built with JavaScript and HTML5.
Stars: ✭ 393 (+1303.57%)
JvarkitJava utilities for Bioinformatics
Stars: ✭ 313 (+1017.86%)
PygenoPersonalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
Stars: ✭ 261 (+832.14%)
Bio.jl[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia
Stars: ✭ 257 (+817.86%)
IntermineA powerful open source data warehouse system
Stars: ✭ 195 (+596.43%)
bacnetBACNET is a Java based platform to develop website for multi-omics analysis
Stars: ✭ 12 (-57.14%)
Deep RulesTen Quick Tips for Deep Learning in Biology
Stars: ✭ 179 (+539.29%)
macrelPredict AMPs in (meta)genomes and peptides
Stars: ✭ 34 (+21.43%)
unimapA EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment
Stars: ✭ 76 (+171.43%)
MetaMorpheusProteomics search software with integrated calibration, PTM discovery, bottom-up, top-down and LFQ capabilities
Stars: ✭ 59 (+110.71%)
ontologyGlobal Insurance Ontology
Stars: ✭ 71 (+153.57%)
Scaff10XPipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads
Stars: ✭ 21 (-25%)
catchA package for designing compact and comprehensive capture probe sets.
Stars: ✭ 55 (+96.43%)
thymeflowInstaller for Thymeflow, a personal knowledge management system.
Stars: ✭ 27 (-3.57%)
jgi-queryA simple command-line tool to download data from Joint Genome Institute databases
Stars: ✭ 38 (+35.71%)
paladinProtein Alignment and Detection Interface
Stars: ✭ 46 (+64.29%)
bio-pipelineMy collection of light bioinformatics analysis pipelines for specific tasks
Stars: ✭ 60 (+114.29%)
open-cravatA modular annotation tool for genomic variants
Stars: ✭ 74 (+164.29%)
staramrScans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.
Stars: ✭ 52 (+85.71%)
OEPsOntology Enhancement Proposal
Stars: ✭ 33 (+17.86%)
hts-pythonpythonic wrapper for htslib
Stars: ✭ 18 (-35.71%)
dysgudysgu-SV is a collection of tools for calling structural variants using short or long reads
Stars: ✭ 47 (+67.86%)
echtvarecht rapid variant annotation and filtering
Stars: ✭ 72 (+157.14%)
solr-ontology-taggerAutomatic tagging and analysis of documents in an Apache Solr index for faceted search by RDF(S) Ontologies & SKOS thesauri
Stars: ✭ 36 (+28.57%)
rare-disease-wf(WIP) best-practices workflow for rare disease
Stars: ✭ 47 (+67.86%)
wgs2ncbiToolkit for preparing genomes for submission to NCBI
Stars: ✭ 25 (-10.71%)
ITOIntelligence Task Ontology (ITO)
Stars: ✭ 37 (+32.14%)
faster lmm dA faster lmm for GWAS. Supports GPU backend.
Stars: ✭ 12 (-57.14%)
dropClustVersion 2.1.0 released
Stars: ✭ 19 (-32.14%)
QFeaturesQuantitative features for mass spectrometry data
Stars: ✭ 12 (-57.14%)
MTBseq sourceMTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.
Stars: ✭ 26 (-7.14%)
bioiconsA library of free open source icons for science illustrations in biology and chemistry
Stars: ✭ 665 (+2275%)
kozaData transformation framework for LinkML data models
Stars: ✭ 21 (-25%)
chanjoChanjo provides a better way to analyze coverage data in clinical sequencing.
Stars: ✭ 46 (+64.29%)
simplesamSimple pure Python SAM parser and objects for working with SAM records
Stars: ✭ 50 (+78.57%)
barqueEnvironmental DNA metabarcoding taxonomic identification
Stars: ✭ 14 (-50%)
smartas📓Notebook of Climente-González et al. (2017), The Functional Impact of Alternative Splicing in Cancer.
Stars: ✭ 13 (-53.57%)
interARTICInterARTIC - An interactive local web application for viral whole genome sequencing utilising the artic network pipelines..
Stars: ✭ 22 (-21.43%)
CASECyber-investigation Analysis Standard Expression (CASE) Ontology
Stars: ✭ 46 (+64.29%)
cath-toolsProtein structure comparison tools such as SSAP and SNAP
Stars: ✭ 40 (+42.86%)
PAW pipelineA Comet-based, best practices proteomics pipeline.
Stars: ✭ 22 (-21.43%)
arcsvComplex structural variant detection from WGS data
Stars: ✭ 16 (-42.86%)
wdlRunRElastic, reproducible, and reusable genomic data science tools from R backed by cloud resources
Stars: ✭ 34 (+21.43%)
souporcellClustering scRNAseq by genotypes
Stars: ✭ 88 (+214.29%)
rnaseq-nfA proof of concept of RNAseq pipeline
Stars: ✭ 44 (+57.14%)
BuddySuiteBioinformatics toolkits for manipulating sequence, alignment, and phylogenetic tree files
Stars: ✭ 106 (+278.57%)
ont-apiONT-API (OWL-API over Apache Jena)
Stars: ✭ 20 (-28.57%)
companionThis repository has been archived, currently maintained version is at https://github.com/iii-companion/companion
Stars: ✭ 21 (-25%)
ontology-eventbusThe Go Language Implementation of Ontology Actor Model
Stars: ✭ 24 (-14.29%)
shiny-iatlasAn interactive web portal for exploring immuno-oncology data
Stars: ✭ 43 (+53.57%)
jbrowse-componentsMonorepo with JBrowse 2 web, JBrowse 2 desktop, the JB core package, and core plugins. To customize behaviors, write an in-house plugin.
Stars: ✭ 89 (+217.86%)
TOGATOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annotation, inferring orthologs and classifying genes as intact or lost.
Stars: ✭ 35 (+25%)