DRAMDistilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes
Stars: ✭ 159 (+140.91%)
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 (-78.79%)
traitarFrom genomes to phenotypes: Traitar, the microbial trait analyzer
Stars: ✭ 41 (-37.88%)
ORNAFast in-silico normalization algorithm for NGS data
Stars: ✭ 21 (-68.18%)
recentrifugeRecentrifuge: robust comparative analysis and contamination removal for metagenomics
Stars: ✭ 79 (+19.7%)
Maaslin2MaAsLin2: Microbiome Multivariate Association with Linear Models
Stars: ✭ 76 (+15.15%)
functree-ngAn interactive radial tree for functional hierarchies and omics data visualization
Stars: ✭ 18 (-72.73%)
metacalMetagenomics calibration R package
Stars: ✭ 16 (-75.76%)
miccamicca - MICrobial Community Analysis
Stars: ✭ 19 (-71.21%)
SemiBinNo description or website provided.
Stars: ✭ 25 (-62.12%)
virnetVirNet: A deep attention model for viral reads identification
Stars: ✭ 26 (-60.61%)
microbiomeMarkerR package for microbiome biomarker discovery
Stars: ✭ 89 (+34.85%)
GraphBinGraphBin: Refined binning of metagenomic contigs using assembly graphs
Stars: ✭ 35 (-46.97%)
matamMapping-Assisted Targeted-Assembly for Metagenomics
Stars: ✭ 18 (-72.73%)
DAtestCompare different differential abundance and expression methods
Stars: ✭ 34 (-48.48%)
catchA package for designing compact and comprehensive capture probe sets.
Stars: ✭ 55 (-16.67%)
Binning refinerImproving genome bins through the combination of different binning programs
Stars: ✭ 26 (-60.61%)
melonnpanModel-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
Stars: ✭ 20 (-69.7%)
InSilicoSeq🚀 A sequencing simulator
Stars: ✭ 116 (+75.76%)
AMBERAMBER: Assessment of Metagenome BinnERs
Stars: ✭ 18 (-72.73%)
MG-RASTThe MG-RAST Backend -- the API server
Stars: ✭ 39 (-40.91%)
macrelPredict AMPs in (meta)genomes and peptides
Stars: ✭ 34 (-48.48%)
covid-19-signalFiles and methodology pertaining to the sequencing and analysis of SARS-CoV-2, causative agent of COVID-19.
Stars: ✭ 31 (-53.03%)
DeepMAsEDDeep learning for Metagenome Assembly Error Detection
Stars: ✭ 24 (-63.64%)
sunbeamA robust, extensible metagenomics pipeline
Stars: ✭ 143 (+116.67%)
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 (-13.64%)
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 (-46.97%)
MOSCAMeta-Omics Software for Community Analysis
Stars: ✭ 26 (-60.61%)
gargammelgargammel is an ancient DNA simulator
Stars: ✭ 17 (-74.24%)
StrainFLAIRStrain-level abundances estimation in metagenomic samples using variation graphs
Stars: ✭ 23 (-65.15%)
metacherchantNo description or website provided.
Stars: ✭ 19 (-71.21%)
MetaCoAGBinning Metagenomic Contigs via Composition, Coverage and Assembly Graphs
Stars: ✭ 29 (-56.06%)
charcoalRemove contaminated contigs from genomes using k-mers and taxonomies.
Stars: ✭ 32 (-51.52%)