Pinned Repositories
16S_Analysis_Workshop
Code for 16S analysis workshop
191203_Baldridge_VLPtagging
Scripts for Larry's VLP Tagging project.
201113-Mouse-CRPS-Combined
Analyses of Lara Crock's combined mouse CRPS cohorts 1 and 2.
201129-Human-CRPS-Combined
Analysis of (5) combined human CRPS cohorts, inluding CRPS, HHC, and Biobank controls.
230808_Gutmann_16S
Analysis of four groups (mix, Vancomycin, Ampicillin, and Neomycin) at two time points (pre and post). All four groups are compared within each time point, and each timepoint is compared within each group.
andrews-correlations
aPCoA
Hecatomb-HTCF-Snake
Snakemake and associated files for Hecatomb on HTCF
Holtz-Lim_MotherTwinInfant_Virome_BacterialMicrobiome
Publication repository for twin/mom study (bacterial and viral).
RachelRodgers's Repositories
RachelRodgers/Holtz-Lim_MotherTwinInfant_Virome_BacterialMicrobiome
Publication repository for twin/mom study (bacterial and viral).
RachelRodgers/Hecatomb-HTCF-Snake
Snakemake and associated files for Hecatomb on HTCF
RachelRodgers/16S_Analysis_Workshop
Code for 16S analysis workshop
RachelRodgers/191203_Baldridge_VLPtagging
Scripts for Larry's VLP Tagging project.
RachelRodgers/201113-Mouse-CRPS-Combined
Analyses of Lara Crock's combined mouse CRPS cohorts 1 and 2.
RachelRodgers/201129-Human-CRPS-Combined
Analysis of (5) combined human CRPS cohorts, inluding CRPS, HHC, and Biobank controls.
RachelRodgers/230808_Gutmann_16S
Analysis of four groups (mix, Vancomycin, Ampicillin, and Neomycin) at two time points (pre and post). All four groups are compared within each time point, and each timepoint is compared within each group.
RachelRodgers/andrews-correlations
RachelRodgers/aPCoA
RachelRodgers/demux-htcf-snake
Snakemake for demultiplexing 16S sequencing files using QIIME1 on the cluster.
RachelRodgers/dirty-bbtools-viral-pipeline
The old, dirty bbtools pipeline up through assembly with IDBA_UD.
RachelRodgers/Friess_16S_Color_Picker
Color picker for 16S family-level community composition plot.
RachelRodgers/FundulidaePhylogenomics_RNAseq
Scripts and files associated with "Phylogenomic analysis of Fundulidae (Teleostei: Cyprinodontiformes) using RNA-sequencing Data"
RachelRodgers/hecatomb-eukVir-wrangling-r
Code for wrangling of eukaryotic viral data output from Hecatomb.
RachelRodgers/VirusVariantViewR-RShiny-Application
VirusVariantViewR RShiny application for viewing output from VirusVariantViewR-HTCF-Snake workflow.
RachelRodgers/JunctionSeqAnalysis
RachelRodgers/KKing-TINMAN-Collaboration
Analysis of 16S and Metagenomic WGS data for TINMAN collaboration.
RachelRodgers/Phage-Pipeline-HTCF-Snake
Phage pipeline for HTCF.
RachelRodgers/pullseq
Utility program for extracting sequences from a fasta/fastq file
RachelRodgers/RachelRodgers
Config files for my GitHub profile.
RachelRodgers/Rumspringa-Coverge-Supplementary
Code for generation of supplementary variant information tables.
RachelRodgers/shared_R_scripts
Functions and variables for 16S microbiome analyses.
RachelRodgers/snakemake_helpers
Helper functions for Snakemake workflows
RachelRodgers/starter-web
Simple starting point website project based upon Initializr
RachelRodgers/STL5-phylogenetics
Phylogenetic tree construction of STL5 for HI Nat Micro Viral Complementation.
RachelRodgers/VirusVariantViewR
Snakemake workflow for detecting CR6 or CW3 viral variants.
RachelRodgers/VirusVariantViewR-Genomes
Code and data needed to generate reference genome information for the VirusVariantViewR workflow and R Shiny application.