Pinned Repositories
adotto-smk
A snakemake based pipeline to build Adotto TR databases
engineering-bio-lacI-landscape
galaxy-hackathon-2014
Instructions to add a tool for using BAYSIC in galaxy using Docker for installing dependencies
genomic_purity
characterization of test material purity using whole genome sequencing data
giab-data-readmes
repo for collaborative drafting and tracking READMEs for GIAB project
giab-hg002-ccs
giab-ont-ul-pipeline
Snakemake pipeline for processing ultra-long ONT datasets.
giab-shiny-portal
a shiny app based data portal for querying metadata for publicly available GIAB data.
MGTST-Manuscript
tr-qc-tool
bioinformatic qc tool for evaluating repeat annotations
nate-d-olson's Repositories
nate-d-olson/wastewater-communities
Data analysis for wastewater communities project
nate-d-olson/rmarkdown-book
R Markdown: The Definitive Guide (under development)
nate-d-olson/phyloseq
phyloseq is a set of classes, wrappers, and tools (in R) to make it easier to import, store, and analyze phylogenetic sequencing data; and to reproducibly share that data and analysis with others. See the phyloseq front page:
nate-d-olson/canu
A single molecule sequence assembler for genomes large and small.
nate-d-olson/mgtst_pipelines
Code for processing mgtst dataset using multiple pipelines
nate-d-olson/breakaway
Species richness with high diversity
nate-d-olson/genomic_purity_analysis
Data analysis and manuscript for genomic purity study
nate-d-olson/genomic_purity
characterization of test material purity using whole genome sequencing data
nate-d-olson/VALET
Repository for VALET biobox
nate-d-olson/metagenomeFeatures
This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/metagenomeFeatures.html Contributions: https://github.com/HCBravoLab/metagenomeFeatures. Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=metagenomeFeatures or https://github.com/HCBravoLab/metagenomeFeatures/issues.
nate-d-olson/bambus3
nate-d-olson/lm
A github repo for the advanced linear models for data science book
nate-d-olson/greengenes13.8_99MgDb
nate-d-olson/taxize
A taxonomic toolbelt for R
nate-d-olson/linear-models-study-group
Study group focused on core concepts related to linear models and GLMs.
nate-d-olson/mgmgnotes
nate-d-olson/quick-notes
random programming notes
nate-d-olson/metagenomeSeq
Statistical analysis for sparse high-throughput sequencing
nate-d-olson/transcriptome_assembly_eval_tutorial
Tutorial for transcriptome assembly using Trinity and assembly evaluation using Transrate
nate-d-olson/docker-basemount
Docker image for Illumina basemount fuse driver
nate-d-olson/github-workflow-13
nate-d-olson/isl-course-notes
Notes and exercises for Introduction to Statistical Learning by James, Witten, Hastie, and Tibshirani
nate-d-olson/r4ds
R for data science
nate-d-olson/minimap
Experimental tool to find approximate mapping positions between long sequences
nate-d-olson/valet-biobox
Biobox docker container for running VALET
nate-d-olson/pepr-publication
nate-d-olson/multicopy_cluster_analysis
Analysis of 16S rRNA gene copy number and clustering.
nate-d-olson/subsampler
Small tool to subsample fasta and fastq files.
nate-d-olson/sapkotaUtils
R package with utilities for Sapkota Lab
nate-d-olson/CBBG_Rosalind_Bioinf
Solutions to Rosalind Textbook Track