Pinned Repositories
comparative-phageomics
Comparing the genomes of a family of phages
format_plate_reader
Python scripts for formatting time course readings on the SpectraMax or Biotek plate readers into a usable format.
little_helpers
Short helper scripts to make life easier. Most apply to microbiome sequencing data, biom tables, etc.
phage_cocktails
Analysis and figures for Phage cocktail paper
phage_simulation
preterm_infant_analysis
Scripts used to analyze preterm infant fecal microbiome and metabolome. DOI: 10.1128/mSphere.00104-18
q2-shogun
A QIIME 2 plugin wrapper for the SHOGUN shallow shotgun sequencing taxonomy profiler
seq_tail_analysis
shotgun_trimming
taxonomy_solution
R shiny app for converting metaphlan2 outputs into simple taxonomy barplots.
swandro's Repositories
swandro/preterm_infant_analysis
Scripts used to analyze preterm infant fecal microbiome and metabolome. DOI: 10.1128/mSphere.00104-18
swandro/format_plate_reader
Python scripts for formatting time course readings on the SpectraMax or Biotek plate readers into a usable format.
swandro/taxonomy_solution
R shiny app for converting metaphlan2 outputs into simple taxonomy barplots.
swandro/comparative-phageomics
Comparing the genomes of a family of phages
swandro/little_helpers
Short helper scripts to make life easier. Most apply to microbiome sequencing data, biom tables, etc.
swandro/phage_cocktails
Analysis and figures for Phage cocktail paper
swandro/phage_simulation
swandro/q2-shogun
A QIIME 2 plugin wrapper for the SHOGUN shallow shotgun sequencing taxonomy profiler
swandro/seq_tail_analysis
swandro/shotgun_trimming
swandro/variant_filter
Filter bad snp calls out of genome alignments