Taylor Reiter's repositories
2020-dissertation
Dissertation writing for PhD at UC Davis
2020-aa-abund
Testing amino acid abundance estimation pipelines
2021-sgc-arg
spacegraphcats on antibiotic resistance genes over time
2021-sgc-binder
binder for mini spacegraphcats bin completion use case
2021-sourmash-taxonomy-hackathon
demo for sourmash taxonomy dev. gather -> krona plot via sourmash taxonomy.
2021-orpheum-nbhds
using orpheum on spacegraphcats nbhds to predict open reading frames in reads
cosmo-kmers
Identifying cosmopolitan k-mers in the iHMP dataset
KEGGDecoder-binder
metabolic heatmap
2020-calprotectin
test rf reg on ibd fecal calprotectin measurements
2021-cami-sgc-prot
Test spacegraphcats protein queries using PFAM orthologs against CAMI low
2021-orpheum-refseq
benchmarking orpheum ORF translation of sequencing reads on sequencing libraries that were assembled into prokaryotic genomes in RefSeq
2021-pfam-shared-kmers
evaluating whether there are shared amino acid kmers in protein sequences from different pfam families
charcoal
Remove contaminated bits of genomes using metagenome correlations.
farm-notes
notes on the farm cluster
genome-grist
map Illumina metagenomes to GenBank genomes
onboarding
Onboarding materials for the Greene Lab
refinebio-py
A python client for the refine.bio API.
staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks