AMBERAMBER: Assessment of Metagenome BinnERs
Stars: ✭ 18 (-30.77%)
catchA package for designing compact and comprehensive capture probe sets.
Stars: ✭ 55 (+111.54%)
SemiBinNo description or website provided.
Stars: ✭ 25 (-3.85%)
GraphBinGraphBin: Refined binning of metagenomic contigs using assembly graphs
Stars: ✭ 35 (+34.62%)
MetaCoAGBinning Metagenomic Contigs via Composition, Coverage and Assembly Graphs
Stars: ✭ 29 (+11.54%)
matamMapping-Assisted Targeted-Assembly for Metagenomics
Stars: ✭ 18 (-30.77%)
virnetVirNet: A deep attention model for viral reads identification
Stars: ✭ 26 (+0%)
miccamicca - MICrobial Community Analysis
Stars: ✭ 19 (-26.92%)
gargammelgargammel is an ancient DNA simulator
Stars: ✭ 17 (-34.62%)
CANDOComputational Analysis of Novel Drug Opportunities
Stars: ✭ 27 (+3.85%)
NearbyFind nearby 3D objects in constant time O(1).
Stars: ✭ 85 (+226.92%)
kraken-biomCreate BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWood/kraken).
Stars: ✭ 35 (+34.62%)
wgs2ncbiToolkit for preparing genomes for submission to NCBI
Stars: ✭ 25 (-3.85%)
SpatialAlignmentHelpful components for aligning and keeping virtual objects aligned with the physical world.
Stars: ✭ 29 (+11.54%)
dysgudysgu-SV is a collection of tools for calling structural variants using short or long reads
Stars: ✭ 47 (+80.77%)
ensembl-comparaThe Ensembl Compara Perl API and SQL schema
Stars: ✭ 43 (+65.38%)
metacherchantNo description or website provided.
Stars: ✭ 19 (-26.92%)
bonsaiBonsai: Fast, flexible taxonomic analysis and classification
Stars: ✭ 66 (+153.85%)
coqealThe Coq Effective Algebra Library [maintainers=@CohenCyril,@proux01]
Stars: ✭ 62 (+138.46%)
siriusSIRIUS is a software for discovering a landscape of de-novo identification of metabolites using tandem mass spectrometry. This repository contains the code of the SIRIUS Software (GUI and CLI)
Stars: ✭ 32 (+23.08%)
BridgeDbThe BridgeDb Library source code
Stars: ✭ 22 (-15.38%)
melonnpanModel-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
Stars: ✭ 20 (-23.08%)
traitarFrom genomes to phenotypes: Traitar, the microbial trait analyzer
Stars: ✭ 41 (+57.69%)
recentrifugeRecentrifuge: robust comparative analysis and contamination removal for metagenomics
Stars: ✭ 79 (+203.85%)
InSilicoSeq🚀 A sequencing simulator
Stars: ✭ 116 (+346.15%)
raptorA fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.
Stars: ✭ 37 (+42.31%)
ganonganon classifies short DNA sequences against large sets of genomic sequences efficiently, with download and update of references (RefSeq/Genbank), taxonomic (NCBI/GTDB) and hierarchical classification, customized reporting and more
Stars: ✭ 57 (+119.23%)
PrimerMinerR mased batch sequence downloader, with primer development and in silico evaluation capabilities
Stars: ✭ 27 (+3.85%)
MOSCAMeta-Omics Software for Community Analysis
Stars: ✭ 26 (+0%)
awesome-phagesA curated list of phage related software and computational resources for phage scientists, bioinformaticians and enthusiasts.
Stars: ✭ 14 (-46.15%)
PandExoA Community Tool for Transiting Exoplanet Science with the JWST & HST
Stars: ✭ 23 (-11.54%)
PHATPathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform
Stars: ✭ 17 (-34.62%)
StrainFLAIRStrain-level abundances estimation in metagenomic samples using variation graphs
Stars: ✭ 23 (-11.54%)
rkmhClassify sequencing reads using MinHash.
Stars: ✭ 42 (+61.54%)
Scaff10XPipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads
Stars: ✭ 21 (-19.23%)
Hap.pyHaplotype VCF comparison tools
Stars: ✭ 249 (+857.69%)
charcoalRemove contaminated contigs from genomes using k-mers and taxonomies.
Stars: ✭ 32 (+23.08%)
protwisProtwis is the backbone of the GPCRdb. The GPCRdb contains reference data, interactive visualisation and experiment design tools for G protein-coupled receptors (GPCRs).
Stars: ✭ 20 (-23.08%)
DRAMDistilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes
Stars: ✭ 159 (+511.54%)
faster lmm dA faster lmm for GWAS. Supports GPU backend.
Stars: ✭ 12 (-53.85%)
JovianMetagenomics/viromics pipeline that focuses on automation, user-friendliness and a clear audit trail. Jovian aims to empower classical biologists and wet-lab personnel to do metagenomics/viromics analyses themselves, without bioinformatics expertise.
Stars: ✭ 14 (-46.15%)
codon-usage-tables📊 Codon usage tables in code-friendly format + Python bindings
Stars: ✭ 21 (-19.23%)
ORNAFast in-silico normalization algorithm for NGS data
Stars: ✭ 21 (-19.23%)
jgi-queryA simple command-line tool to download data from Joint Genome Institute databases
Stars: ✭ 38 (+46.15%)
Maaslin2MaAsLin2: Microbiome Multivariate Association with Linear Models
Stars: ✭ 76 (+192.31%)
sample-sheetA permissively licensed library designed to replace Illumina's Experiment Manager
Stars: ✭ 42 (+61.54%)
SnifflesStructural variation caller using third generation sequencing
Stars: ✭ 248 (+853.85%)
gnparserGNparser normalises scientific names and extracts their semantic elements.
Stars: ✭ 26 (+0%)
MG-RASTThe MG-RAST Backend -- the API server
Stars: ✭ 39 (+50%)
Dash.jlDash for Julia - A Julia interface to the Dash ecosystem for creating analytic web applications in Julia. No JavaScript required.
Stars: ✭ 248 (+853.85%)
CeleScopeSingle Cell Analysis Pipelines
Stars: ✭ 36 (+38.46%)
CanvasxpressJavaScript VisualizationTools
Stars: ✭ 247 (+850%)
macrelPredict AMPs in (meta)genomes and peptides
Stars: ✭ 34 (+30.77%)
BiopythonOfficial git repository for Biopython (originally converted from CVS)
Stars: ✭ 2,936 (+11192.31%)
TeamTeriGenomics using open source tools, running on GCP or AWS
Stars: ✭ 30 (+15.38%)
covid-19-signalFiles and methodology pertaining to the sequencing and analysis of SARS-CoV-2, causative agent of COVID-19.
Stars: ✭ 31 (+19.23%)
Cyvcf2cython + htslib == fast VCF and BCF processing
Stars: ✭ 243 (+834.62%)
StrelkaStrelka2 germline and somatic small variant caller
Stars: ✭ 244 (+838.46%)