Pinned Repositories
16S-demultiplexing
ABruijn
Long read assembly via A-Bruijn graph
CanSNPer
A hierarchical genotype classifier of clonal pathogens
family-based-smoothed-FPCA
Gravitropism-plot
Script to plot gravitropism data
hsph-scripts
Small useful scripts
openlabbook
snippy
:scissors: :zap: Rapid bacterial SNP calling and core genome alignments
spectrassembler
Tool (experimental) to compute layout from overlaps with spectral algorithm
wgs2ncbi
Toolkit for preparing genomes for submission to NCBI
druvus's Repositories
druvus/wgs2ncbi
Toolkit for preparing genomes for submission to NCBI
druvus/CanSNPer
A hierarchical genotype classifier of clonal pathogens
druvus/Gravitropism-plot
Script to plot gravitropism data
druvus/amptk
AMPtk: Amplicon ToolKit for NGS data (formally UFITS)
druvus/argutils-feedstock
A conda-smithy repository for argutils.
druvus/bio-scripts
druvus/bioconda-recipes
Conda recipes for the bioconda channel.
druvus/CCMetagen
Microbiome classification pipeline
druvus/conda-forge-pinning-feedstock
A conda-smithy repository for conda-forge-pinning.
druvus/doepipeline
A python package for optimizing processing pipelines using statistical design of experiments (DoE).
druvus/fieldbioinformatics
The ARTIC field bioinformatics pipeline
druvus/gms_16S
A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.
druvus/in_place-feedstock
A conda-smithy repository for in_place.
druvus/kraken2_confidence_recal
A post-processing tool to reclassify Kraken 2 output based on the confidence score and/or minimizer hit groups.
druvus/krakenhll
KrakenHLL metagenomics classification method with unique k-mer counting for more specific results
druvus/Lilo
Stitch together Nanopore tiled amplicon data without polishing a reference
druvus/NanoCLUST
NanoCLUST is an analysis pipeline for UMAP-based classification of amplicon-based full-length 16S rRNA nanopore reads
druvus/nanoq
Minimal but speedy quality control for nanopore reads in Rust :bear:
druvus/NCBImeta
Efficient and comprehensive metadata acquisition from the NCBI databases (includes SRA).
druvus/pangolin
Resources for a lineage naming scheme for SARS-CoV-2/hCoV-2019
druvus/POGENOM
Population genomics from metagenomes
druvus/project-milk
Metagenomics using snakemake
druvus/SACRA
SACRA (Split Amplified Chimeric Read Algorithm) is the algorithm for correcting chimeric long-reads generated by MDA.
druvus/sdsl-lite-feedstock
A conda-smithy repository for sdsl-lite.
druvus/seqcluster
small RNA analysis from NGS data
druvus/SNPGenie
Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
druvus/staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
druvus/TREE2FASTA
Mining FASTA data from trees
druvus/TreeToReads
Pipeline to generate NGS reads from a phylogeny
druvus/YACHT
A mathematically characterized hypothesis test for organism presence/absence in a metagenome