MetaCoAGBinning Metagenomic Contigs via Composition, Coverage and Assembly Graphs
Stars: ✭ 29 (+52.63%)
charcoalRemove contaminated contigs from genomes using k-mers and taxonomies.
Stars: ✭ 32 (+68.42%)
bonsaiBonsai: Fast, flexible taxonomic analysis and classification
Stars: ✭ 66 (+247.37%)
DRAMDistilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes
Stars: ✭ 159 (+736.84%)
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 (-26.32%)
traitarFrom genomes to phenotypes: Traitar, the microbial trait analyzer
Stars: ✭ 41 (+115.79%)
ORNAFast in-silico normalization algorithm for NGS data
Stars: ✭ 21 (+10.53%)
recentrifugeRecentrifuge: robust comparative analysis and contamination removal for metagenomics
Stars: ✭ 79 (+315.79%)
Maaslin2MaAsLin2: Microbiome Multivariate Association with Linear Models
Stars: ✭ 76 (+300%)
functree-ngAn interactive radial tree for functional hierarchies and omics data visualization
Stars: ✭ 18 (-5.26%)
metacalMetagenomics calibration R package
Stars: ✭ 16 (-15.79%)
miccamicca - MICrobial Community Analysis
Stars: ✭ 19 (+0%)
SemiBinNo description or website provided.
Stars: ✭ 25 (+31.58%)
virnetVirNet: A deep attention model for viral reads identification
Stars: ✭ 26 (+36.84%)
microbiomeMarkerR package for microbiome biomarker discovery
Stars: ✭ 89 (+368.42%)
GraphBinGraphBin: Refined binning of metagenomic contigs using assembly graphs
Stars: ✭ 35 (+84.21%)
matamMapping-Assisted Targeted-Assembly for Metagenomics
Stars: ✭ 18 (-5.26%)
DAtestCompare different differential abundance and expression methods
Stars: ✭ 34 (+78.95%)
catchA package for designing compact and comprehensive capture probe sets.
Stars: ✭ 55 (+189.47%)
Binning refinerImproving genome bins through the combination of different binning programs
Stars: ✭ 26 (+36.84%)
melonnpanModel-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
Stars: ✭ 20 (+5.26%)
InSilicoSeq🚀 A sequencing simulator
Stars: ✭ 116 (+510.53%)
AMBERAMBER: Assessment of Metagenome BinnERs
Stars: ✭ 18 (-5.26%)
MG-RASTThe MG-RAST Backend -- the API server
Stars: ✭ 39 (+105.26%)
macrelPredict AMPs in (meta)genomes and peptides
Stars: ✭ 34 (+78.95%)
covid-19-signalFiles and methodology pertaining to the sequencing and analysis of SARS-CoV-2, causative agent of COVID-19.
Stars: ✭ 31 (+63.16%)
DeepMAsEDDeep learning for Metagenome Assembly Error Detection
Stars: ✭ 24 (+26.32%)
sunbeamA robust, extensible metagenomics pipeline
Stars: ✭ 143 (+652.63%)
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 (+200%)
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 (+84.21%)
MOSCAMeta-Omics Software for Community Analysis
Stars: ✭ 26 (+36.84%)
gargammelgargammel is an ancient DNA simulator
Stars: ✭ 17 (-10.53%)
StrainFLAIRStrain-level abundances estimation in metagenomic samples using variation graphs
Stars: ✭ 23 (+21.05%)